Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold175
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1254584
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
File 5 of 8
Found at i:657848 original size:3 final size:3
Alignment explanation
Indices: 657832--657868 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
657822 TCAACTTTGA
* *
657832 TAT TAT AAT AAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
657869 CAAGGTTCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:659243 original size:2 final size:2
Alignment explanation
Indices: 659236--659265 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
659226 CATGTTAAAG
659236 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
659266 GTGTGTGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:661488 original size:23 final size:26
Alignment explanation
Indices: 661461--661507 Score: 73
Period size: 23 Copynumber: 1.9 Consensus size: 26
661451 AAGTTTTAGT
661461 TTTTTTAT-TTTTT-TA-ATTTGTTA
1 TTTTTTATGTTTTTGTAGATTTGTTA
661484 TTTTTTATGTTTTTGTAGATTTGT
1 TTTTTTATGTTTTTGTAGATTTGT
661508 CAAAGATTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 8 0.38
24 5 0.24
25 2 0.10
26 6 0.29
ACGTcount: A:0.15, C:0.00, G:0.11, T:0.74
Consensus pattern (26 bp):
TTTTTTATGTTTTTGTAGATTTGTTA
Found at i:662088 original size:18 final size:18
Alignment explanation
Indices: 662065--662100 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
662055 ATTTGGGTTG
662065 AAAAAAA-CAAAAACAACT
1 AAAAAAATCAAAAA-AACT
662083 AAAAAAATCAAAAAAACT
1 AAAAAAATCAAAAAAACT
662101 GATCGAACCG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.78, C:0.14, G:0.00, T:0.08
Consensus pattern (18 bp):
AAAAAAATCAAAAAAACT
Found at i:668255 original size:21 final size:21
Alignment explanation
Indices: 668214--668257 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
668204 CTACCCTTTA
* *
668214 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
668235 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
668256 TC
1 TC
668258 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:670082 original size:13 final size:13
Alignment explanation
Indices: 670064--670089 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
670054 ATAATCACCC
670064 TGTATCGATACAA
1 TGTATCGATACAA
670077 TGTATCGATACAA
1 TGTATCGATACAA
670090 GGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:674030 original size:21 final size:21
Alignment explanation
Indices: 674001--674045 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
673991 AAGTTTTCAT
*
674001 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
674021 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
674043 TTT
1 TTT
674046 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:683429 original size:76 final size:76
Alignment explanation
Indices: 683170--683495 Score: 429
Period size: 76 Copynumber: 4.2 Consensus size: 76
683160 GAGATAATAT
* *
683170 GGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCT-ATGA
1 GGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGA---TGAAAAAT-TGATGT
*
683234 TTTAGAAATAAAATC
62 TTTAGAAATAAAACC
* * * * *
683249 GGGATTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATT
1 GGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCG---ATGAAAAATTGATGTT
**
683314 TTAGAAATAAAATT
63 TTAGAAATAAAACC
* *** * *
683328 AGGGTTGGAGTATCCCCTTGGAAATAACGAGGTTAGAGTATCCCCGATGAAAAATTGATGTTTTA
1 GGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATGAAAAATTGATGTTTTA
683393 GAAATAAAACC
66 GAAATAAAACC
*
683404 GGGGTTGGGGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATGAAAAATTGATGTTTTA
1 GGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATGAAAAATTGATGTTTTA
683469 GAAATAAAACC
66 GAAATAAAACC
683480 GGGGTTGGAGTATCCC
1 GGGGTTGGAGTATCCC
683496 TGATGAAAAA
Statistics
Matches: 217, Mismatches: 26, Indels: 11
0.85 0.10 0.04
Matches are distributed among these distances:
76 109 0.50
78 1 0.00
79 106 0.49
82 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (76 bp):
GGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATGAAAAATTGATGTTTTA
GAAATAAAACC
Found at i:683574 original size:51 final size:50
Alignment explanation
Indices: 683433--683709 Score: 325
Period size: 51 Copynumber: 5.6 Consensus size: 50
683423 AAAAATAACG
683433 GGGTTGGAGTATCCCCG---ATGAAAAATTGATGTTTTAGAAATAAAACC
1 GGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACC
*
683480 GGGGTTGGAGTAT-CCC--TGATGAAAAATTGATGTTTTAGAAATAAAACC
1 -GGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACC
* * * * *
683528 AGGGTTGGAGTATCCCCGATTATGAAAAGTCGGTGTTTTGGAAATAAAATC
1 -GGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACC
* * *
683579 GGAGTTGGAGTATCCCCGATTATGAAAAATGGGTGTTTTAGAAATAAAATC
1 GG-GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACC
* * *
683630 GGAGTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATGAAACC
1 GG-GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACC
* * *
683681 GAGATTGGAGTATCCCTGA-GATGAAAAAT
1 G-GGTTGGAGTATCCCCGATTATGAAAAAT
683710 CTAGAAATTT
Statistics
Matches: 202, Mismatches: 20, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
47 3 0.01
48 54 0.27
49 3 0.01
50 10 0.05
51 131 0.65
52 1 0.00
ACGTcount: A:0.35, C:0.11, G:0.26, T:0.28
Consensus pattern (50 bp):
GGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACC
Found at i:685950 original size:20 final size:20
Alignment explanation
Indices: 685925--685978 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
685915 AAAATGCCTG
*
685925 AATGTATCGATACAATG-AGC
1 AATGTATCGATACAATGCA-A
685945 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATGCAA
685965 AATGTATCGATACA
1 AATGTATCGATACA
685979 TCTGGGTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.26
Consensus pattern (20 bp):
AATGTATCGATACAATGCAA
Found at i:687179 original size:55 final size:55
Alignment explanation
Indices: 687100--687735 Score: 823
Period size: 55 Copynumber: 11.3 Consensus size: 55
687090 AGAGAAAGCA
* * *
687100 TCCTGCTCTTTAAAGACT-AGAAAATGTCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGA-AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
687155 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGCA
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
* * * *
687210 TCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTTTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
687265 TCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
* * *
687320 TCCTGCTCTTTGAAGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCG
*
687381 TCCTGCTCTTTGAGGACT-AGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGA-AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
** * *
687436 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
687491 TCCTACTCTTTAAGGA-TAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
**
687546 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
687601 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGACCTTGAAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGG-GCTT----TG-AAAGGCG
* * *
687662 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
1 TCCTGCTCTTTGAGGACT-GAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
687718 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
687736 AAAGGGCGAA
Statistics
Matches: 511, Mismatches: 48, Indels: 43
0.85 0.08 0.07
Matches are distributed among these distances:
54 5 0.01
55 374 0.73
56 32 0.06
60 1 0.00
61 75 0.15
62 24 0.05
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:687260 original size:27 final size:27
Alignment explanation
Indices: 687175--687313 Score: 68
Period size: 27 Copynumber: 5.1 Consensus size: 27
687165 TGAGGACTGA
*
687175 AAAATGCCACCAACTTGTGTGGGCTTT
1 AAAATGCCACCAACTTGTTTGGGCTTT
* * * * **
687202 AAGA-GGCATCCTAC-TCTTTGAGGACTGG
1 AAAATGCCA-CCAACTTGTTTG-GG-CTTT
687230 AAAATGCCACCAACTTGTTTGGGCTTT
1 AAAATGCCACCAACTTGTTTGGGCTTT
* ** ** * **
687257 AAAAGGCGTCCTGC-TCTTTGAGGACTAA
1 AAAATGCCACCAACTTGTTTG-GG-CTTT
*
687285 AAAATGCCACCAACTTGTGTGGGCTTT
1 AAAATGCCACCAACTTGTTTGGGCTTT
687312 AA
1 AA
687314 GAGGCGTCCT
Statistics
Matches: 74, Mismatches: 30, Indels: 16
0.62 0.25 0.13
Matches are distributed among these distances:
26 12 0.16
27 26 0.35
28 24 0.32
29 12 0.16
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (27 bp):
AAAATGCCACCAACTTGTTTGGGCTTT
Found at i:687266 original size:110 final size:110
Alignment explanation
Indices: 687032--687738 Score: 913
Period size: 110 Copynumber: 6.3 Consensus size: 110
687022 TTTGAAAAGG
* **
687032 AAAGGCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAA
1 AAAGGCGTCCTGCTCTTTGAGGACTA-AAAATGCCACCAACTTGTGTGGGCTTTG--AAGAG---
* * * * * *
687097 GCATCCTGCTCTTTAAAGACTAGAAAATGTCACCAACTTGTGTGGGCTTTG
60 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTA
*
687148 AAAGGCGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGCATC
1 AAAGGCGTCCTGCTCTTTGAGGACT-AAAAATGCCACCAACTTGTGTGGGCTTTGAAGAGGCGTC
* *
687212 CTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTTTGGGCTTTA
65 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTA
687258 AAAGGCGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGCGTC
1 AAAGGCGTCCTGCTCTTTGAGGACT-AAAAATGCCACCAACTTGTGTGGGCTTTGAAGAGGCGTC
*
687322 CTGCTCTTTGAAGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGA
65 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT------A
* *
687374 AAAGGTGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTCGTGTGGGCTTTGAA-AGGCGTC
1 AAAGGCGTCCTGCTCTTTGAGGACTA-AAAATGCCACCAACTTGTGTGGGCTTTGAAGAGGCGTC
* *
687438 CTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTA
65 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTA
* *
687484 AAAGGCGTCCTACTCTTTAAGGA-TAAAAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGCGT
1 AAAGGCGTCCTGCTCTTTGAGGACT--AAAAATGCCACCAACTTGTGTGGGCTTTGAAGAGGCGT
* *
687547 CCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTG
64 CCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTA
* * *
687594 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGACCTTGAAAGGAAAAG
1 AAAGGCGTCCTGCTCTTTGAGGACT-AAAAATGCCACCAACTTGTGTGGGCTTTG-AA-G---AG
*
687659 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTA
60 GCGTCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTA
*
687711 AAAGGCATCCTGCTCTTTGAGGACTAAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAA
687739 GGGCGAAAGG
Statistics
Matches: 534, Mismatches: 36, Indels: 42
0.87 0.06 0.07
Matches are distributed among these distances:
109 4 0.01
110 292 0.55
111 4 0.01
113 5 0.01
115 1 0.00
116 174 0.33
117 54 0.10
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (110 bp):
AAAGGCGTCCTGCTCTTTGAGGACTAAAAATGCCACCAACTTGTGTGGGCTTTGAAGAGGCGTCC
TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTA
Found at i:687537 original size:281 final size:282
Alignment explanation
Indices: 686986--687735 Score: 1080
Period size: 281 Copynumber: 2.6 Consensus size: 282
686976 CATTCTACTA
* *
686986 TTTGAGGATTAAAAAGTGCCACCAA-TTGGTGTGGGCTTTGAAAAGGAAAGGCGTCCTACTCTTT
1 TTTGAGGACTAAAAAGTGCCACCAACTT-GTGTGGGCTTT--AAA-G--AGGCGTCCTGCTCTTT
* ** * * *
687050 GAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAA-GAGAAA-GCATCCTGCTCTTTAA
60 GAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAAAGGA-AAAGGCGTCCTGCTCTTTGA
* *
687113 AGACTAGAAAATGTCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAAA
123 GGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAAA
* * **
687178 ATGCCACCAACTTGTGTGGGCTTTAAGAGGCATCCTACTCTTTGAGGACTGGAAAATGCCACCAA
188 ATGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTACTCTTTAAGGACTAAAAAATGCCACCAA
*
687243 CTTGTTTGGGCTTTAAAAGGCGTCCTGCTC
253 CTTGTGTGGGCTTTAAAAGGCGTCCTGCTC
* *
687273 TTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGCGTCCTGCTCTTTGAAGAC
1 TTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAGAGGCGTCCTGCTCTTTGAGGAC
*
687337 TGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTGCTCTTTGAGGACTAGA
66 TGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGA
* ** *
687402 AAATGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACC
131 AAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAAAATGCCACC
*
687467 AACTTGTGTGGGCTTTAAAAGGCGTCCTACTCTTTAAGGA-TAAAAAAATGCCACCAACTTGTGT
196 AACTTGTGTGGGCTTTAAAAGGCATCCTACTCTTTAAGGACT-AAAAAATGCCACCAACTTGTGT
*
687531 GGGCTTTGAAAGGCGTCCTGCTC
260 GGGCTTTAAAAGGCGTCCTGCTC
* * *
687554 TTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGCGTCCTGCTCTTTGAGGAC
1 TTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAGAGGCGTCCTGCTCTTTGAGGAC
* * *
687618 TGGAAAATGCCACCAACTTGTGTGGACCTTGAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGA
66 TGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGA
* *
687683 AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACT
131 AAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACT
687736 AAAGGGCGAA
Statistics
Matches: 422, Mismatches: 35, Indels: 17
0.89 0.07 0.04
Matches are distributed among these distances:
280 7 0.02
281 328 0.78
282 48 0.11
283 1 0.00
284 2 0.00
287 34 0.08
288 2 0.00
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (282 bp):
TTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAGAGGCGTCCTGCTCTTTGAGGAC
TGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGA
AAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAAAATGCCACC
AACTTGTGTGGGCTTTAAAAGGCATCCTACTCTTTAAGGACTAAAAAATGCCACCAACTTGTGTG
GGCTTTAAAAGGCGTCCTGCTC
Found at i:688808 original size:1 final size:1
Alignment explanation
Indices: 688802--688879 Score: 66
Period size: 1 Copynumber: 78.0 Consensus size: 1
688792 CAGATTCTTC
** * * * * * * *
688802 TTTTTTTTTTTCCTTTTTTCTTTGTTTTGTTTTTTTGTTTTTTGTTTTTTTTATTTTTTTTGTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
688867 TTATTTTTTTTTT
1 TTTTTTTTTTTTT
688880 GAAAAAGAAT
Statistics
Matches: 59, Mismatches: 18, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 59 1.00
ACGTcount: A:0.03, C:0.04, G:0.06, T:0.87
Consensus pattern (1 bp):
T
Found at i:688843 original size:25 final size:23
Alignment explanation
Indices: 688802--688879 Score: 77
Period size: 24 Copynumber: 3.3 Consensus size: 23
688792 CAGATTCTTC
** *
688802 TTTTTTTTTTTCCTTTTTTCTTT
1 TTTTTTTTTTTTGTTTTTTGTTT
*
688825 GTTTTGTTTTTTTGTTTTTTGTTT
1 -TTTTTTTTTTTTGTTTTTTGTTT
*
688849 TTTTTATTTTTTT-TGTTTTTATTT
1 TTTTT-TTTTTTTGT-TTTTTGTTT
688873 TTTTTTT
1 TTTTTTT
688880 GAAAAAGAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
23 7 0.15
24 39 0.85
ACGTcount: A:0.03, C:0.04, G:0.06, T:0.87
Consensus pattern (23 bp):
TTTTTTTTTTTTGTTTTTTGTTT
Found at i:701557 original size:154 final size:152
Alignment explanation
Indices: 701254--701608 Score: 426
Period size: 154 Copynumber: 2.3 Consensus size: 152
701244 ATCTCTCGAC
* * *
701254 GAGAAATTTAATATTTTGGAGATAATAACAGGGTTGGATTATCCCCTCGAAAATAACGGGGTTGG
1 GAGAAA-TTAATATTTTAGAAATAA-AACAGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGG
* * * * *
701319 AGTATCCCCGATTGTGAGAAATCGATGATTTAGAAATAAAATCGAGATTGGAGTATCTCTTCGGA
64 AGTATCCCCGA-T-TGAAAAATCGATGATTTAGAAATAAAACCGAGATTGGAGTATCCCCTCGAA
*
701384 AATAACGGGGTTGGAGTATCCCCGATTAT
127 AATAACGAGGTTGGAGTATCCCCG---AT
* *
701413 GAGAAATTAATATTTTAGAAATAAAACCAGGGTTGGAGTATCCCCTTGGAAATAAC-GGGTTGGA
1 GAGAAATTAATATTTTAGAAATAAAA-CAGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGA
* * * * *
701477 GTATCCCCGA-TGAAAAATTGATGTTTTAGAAATAAAACCGGGCTTGGGGTATCCCCTCGAAAAT
65 GTATCCCCGATTGAAAAATCGATGATTTAGAAATAAAACCGAGATTGGAGTATCCCCTCGAAAAT
701541 AACGAGGTTGGAGTATCCCCGAT
130 AACGAGGTTGGAGTATCCCCGAT
* * * * *
701564 GAAAAATTGATGTTTTAGAAATAAAATCGGGGTTAGAGTATCCCC
1 GAGAAATTAATATTTTAGAAATAAAA-CAGGGTTGGAGTATCCCC
701609 GATGAAAAAT
Statistics
Matches: 173, Mismatches: 22, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
151 41 0.24
154 64 0.37
157 20 0.12
158 42 0.24
159 6 0.03
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.28
Consensus pattern (152 bp):
GAGAAATTAATATTTTAGAAATAAAACAGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAG
TATCCCCGATTGAAAAATCGATGATTTAGAAATAAAACCGAGATTGGAGTATCCCCTCGAAAATA
ACGAGGTTGGAGTATCCCCGAT
Found at i:701578 original size:76 final size:75
Alignment explanation
Indices: 701275--701608 Score: 391
Period size: 79 Copynumber: 4.3 Consensus size: 75
701265 TATTTTGGAG
* * *
701275 ATAATAACAGGGTTGGATTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAA
1 ATAA-AACCGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGA---TGAAAAA
* *
701340 TCGATGATTTAGAA
62 TTGATGTTTTAGAA
* * * * * *
701354 ATAAAATCGAGATTGGAGTATCTCTTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAA
1 ATAAAACCG-GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCG---ATGAAAAA
* *
701419 TTAATATTTTAGAA
62 TTGATGTTTTAGAA
* *
701433 ATAAAACCAGGGTTGGAGTATCCCCTTGGAAATAAC-GGGTTGGAGTATCCCCGATGAAAAATTG
1 ATAAAACC-GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAAAATTG
701497 ATGTTTTAGAA
65 ATGTTTTAGAA
* *
701508 ATAAAACCGGGCTTGGGGTATCCCCTCGAAAATAACGAGGTTGGAGTATCCCCGATGAAAAATTG
1 ATAAAACCGGG-TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAAAATTG
701573 ATGTTTTAGAA
65 ATGTTTTAGAA
* *
701584 ATAAAATCGGGGTTAGAGTATCCCC
1 ATAAAA-CCGGGTTGGAGTATCCCC
701609 GATGAAAAAT
Statistics
Matches: 221, Mismatches: 26, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
74 3 0.01
75 48 0.22
76 55 0.25
77 4 0.02
78 20 0.09
79 89 0.40
80 1 0.00
82 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.27
Consensus pattern (75 bp):
ATAAAACCGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAAAATTGA
TGTTTTAGAA
Found at i:701605 original size:48 final size:48
Alignment explanation
Indices: 701546--701821 Score: 300
Period size: 51 Copynumber: 5.5 Consensus size: 48
701536 AAAATAACGA
701546 GGTTGGAGTATCCCCGATGAAAAATTGATGTTTTAGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATGAAAAATTGATGTTTTAGAAATAAAATCGG
* * * *
701594 GGTTAGAGTATCCCCGATGAAAAATTGATGTTTTAAAAATAAAACCAG
1 GGTTGGAGTATCCCCGATGAAAAATTGATGTTTTAGAAATAAAATCGG
* * *
701642 GGTTGGAGTATCCCCGGTTATGAAAAGTTGGTGTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCC-G--ATGAAAAATTGATGTTTTAGAAATAAAATCGG
* * * *
701693 AGTTGGAGTATCCCCGATTATGGAAAATTGGTGTTTTAGAAAAAAAATCGG
1 GGTTGGAGTATCCCCG---ATGAAAAATTGATGTTTTAGAAATAAAATCGG
* * * * *
701744 AGTTGGAGTATCTCCGATTAAGAAAAATTGATGTTTTGGAAATGAAACCGG
1 GGTTGGAGTATCCCCGA-T--GAAAAATTGATGTTTTAGAAATAAAATCGG
*
701795 GATTGGAGTATCCCCGAGATGAAAAAT
1 GGTTGGAGTATCCCC--GATGAAAAAT
701822 CTAGAAATTT
Statistics
Matches: 193, Mismatches: 26, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
48 59 0.31
49 2 0.01
50 8 0.04
51 121 0.63
52 1 0.01
53 2 0.01
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.29
Consensus pattern (48 bp):
GGTTGGAGTATCCCCGATGAAAAATTGATGTTTTAGAAATAAAATCGG
Found at i:704136 original size:20 final size:20
Alignment explanation
Indices: 704111--704204 Score: 129
Period size: 20 Copynumber: 4.7 Consensus size: 20
704101 AAAATGCCTG
*
704111 AATGTATCGATACATTGTA-A
1 AATGTATCGATACAATG-AGA
*
704131 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGAGA
*
704151 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGAGA
704171 AATGTATCGATACAATGCA-A
1 AATGTATCGATACAATG-AGA
704191 AATGTATCGATACA
1 AATGTATCGATACA
704205 TCTGGGTAAA
Statistics
Matches: 69, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
19 1 0.01
20 67 0.97
21 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (20 bp):
AATGTATCGATACAATGAGA
Found at i:704259 original size:13 final size:13
Alignment explanation
Indices: 704241--704268 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
704231 ATACAATGAT
704241 CAATGTATCGATA
1 CAATGTATCGATA
704254 CAATGTATCGATA
1 CAATGTATCGATA
704267 CA
1 CA
704269 TTGAATAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:704265 original size:33 final size:33
Alignment explanation
Indices: 704223--704288 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
704213 AACTTCCTAG
704223 ATGTATCGATACAATG-ATCAATGTATCGATACA
1 ATGTATCGATACAATGAAT-AATGTATCGATACA
*
704256 ATGTATCGATACATTGAATAATGTATCGATACA
1 ATGTATCGATACAATGAATAATGTATCGATACA
704289 TTTCCTTGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 29 0.94
34 2 0.06
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (33 bp):
ATGTATCGATACAATGAATAATGTATCGATACA
Found at i:707056 original size:13 final size:13
Alignment explanation
Indices: 707038--707062 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
707028 ATGTTGCACA
707038 GTATCGATACATT
1 GTATCGATACATT
707051 GTATCGATACAT
1 GTATCGATACAT
707063 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:707194 original size:33 final size:32
Alignment explanation
Indices: 707133--707199 Score: 89
Period size: 33 Copynumber: 2.1 Consensus size: 32
707123 GTAGCTAAAC
** *
707133 TTGTATCGATACACACAGTATGTATCGATGCA
1 TTGTATCGATACACACAAAATGTATCGATACA
*
707165 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACA-CACAAAATGTATCGATACA
707198 TT
1 TT
707200 TGCTAGTAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 13 0.43
33 17 0.57
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:708784 original size:9 final size:9
Alignment explanation
Indices: 708770--708794 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
708760 AACCATCAAG
708770 GATGATGAA
1 GATGATGAA
708779 GATGATGAA
1 GATGATGAA
708788 GATGATG
1 GATGATG
708795 GTGACTCAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.36, T:0.24
Consensus pattern (9 bp):
GATGATGAA
Found at i:713356 original size:13 final size:13
Alignment explanation
Indices: 713338--713376 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
713328 CAACATTCTC
*
713338 TGTATCGATACAT
1 TGTATCGATACAA
713351 TGTATCGATACAA
1 TGTATCGATACAA
713364 TGTATCGATACAA
1 TGTATCGATACAA
713377 GGGGATTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:715209 original size:31 final size:31
Alignment explanation
Indices: 715174--715251 Score: 156
Period size: 31 Copynumber: 2.5 Consensus size: 31
715164 AATAAATTTT
715174 TGATTAAGGGGGAGAAAGAGATAAGTGCTTA
1 TGATTAAGGGGGAGAAAGAGATAAGTGCTTA
715205 TGATTAAGGGGGAGAAAGAGATAAGTGCTTA
1 TGATTAAGGGGGAGAAAGAGATAAGTGCTTA
715236 TGATTAAGGGGGAGAA
1 TGATTAAGGGGGAGAA
715252 TGCGAATTTG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.38, C:0.03, G:0.37, T:0.22
Consensus pattern (31 bp):
TGATTAAGGGGGAGAAAGAGATAAGTGCTTA
Found at i:716089 original size:21 final size:21
Alignment explanation
Indices: 716047--716090 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
716037 GCTATATTTT
*
716047 CAAATGTGTATCGATATATCA
1 CAAATGTGTATCGATACATCA
716068 CAAAT-TGTATCGATACATTCA
1 CAAATGTGTATCGATACA-TCA
716089 CA
1 CA
716091 CGGGAAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (21 bp):
CAAATGTGTATCGATACATCA
Found at i:719659 original size:61 final size:60
Alignment explanation
Indices: 719570--719693 Score: 178
Period size: 62 Copynumber: 2.0 Consensus size: 60
719560 TCATTAAGAA
* * * * *
719570 TAATTGCTCAATATAGAAAAATAATTAG-AAAAAAGAGAAATAGAGAGTTAAGAAATTGT
1 TAATTGCTAAATATACAAAAATAATTAGAAAAAAAAAGAAATAGAGAGTTAAAAAATTAT
719629 TAATTGCTTAAATATAACAAAAATAATTAGAAAAAAAAAGAAATAGAGAGTTAAAAAATTAT
1 TAATTGC-TAAATAT-ACAAAAATAATTAGAAAAAAAAAGAAATAGAGAGTTAAAAAATTAT
719691 TAA
1 TAA
719694 GAAGAAAATG
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
59 7 0.12
60 6 0.11
61 13 0.23
62 31 0.54
ACGTcount: A:0.58, C:0.03, G:0.13, T:0.26
Consensus pattern (60 bp):
TAATTGCTAAATATACAAAAATAATTAGAAAAAAAAAGAAATAGAGAGTTAAAAAATTAT
Found at i:723563 original size:52 final size:51
Alignment explanation
Indices: 723478--723601 Score: 203
Period size: 52 Copynumber: 2.4 Consensus size: 51
723468 ATATGAAAAG
* *
723478 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAA
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
* *
723529 TTTTCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAA
1 -TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
723581 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
723602 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
51 20 0.30
52 47 0.70
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
Found at i:723628 original size:13 final size:13
Alignment explanation
Indices: 723610--723634 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
723600 CAAAGATCAG
723610 TGTATCGATACAA
1 TGTATCGATACAA
723623 TGTATCGATACA
1 TGTATCGATACA
723635 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:725662 original size:13 final size:13
Alignment explanation
Indices: 725644--725668 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
725634 CATAAAGTGT
725644 TGTATCGATACAA
1 TGTATCGATACAA
725657 TGTATCGATACA
1 TGTATCGATACA
725669 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:725679 original size:32 final size:32
Alignment explanation
Indices: 725624--725721 Score: 160
Period size: 32 Copynumber: 3.0 Consensus size: 32
725614 TTCAACGATT
725624 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
725657 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* * *
725689 CGTATCGATGCATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
725721 T
1 T
725722 ATAAGCTACT
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
32 48 0.79
33 13 0.21
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:733273 original size:13 final size:13
Alignment explanation
Indices: 733255--733280 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
733245 CAATTTTTTG
733255 TGTATCGATACAT
1 TGTATCGATACAT
733268 TGTATCGATACAT
1 TGTATCGATACAT
733281 ACTTGCTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:733365 original size:20 final size:20
Alignment explanation
Indices: 733340--733412 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
733330 CAACTTTTTT
733340 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
733360 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
733381 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
733401 ATGTATCGATAC
1 ATGTATCGATAC
733413 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:733378 original size:41 final size:41
Alignment explanation
Indices: 733319--733412 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
733309 CTGCCAAGAA
*
733319 ATGTATCGATACAACTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
*
733360 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
733401 ATGTATCGATAC
1 ATGTATCGATAC
733413 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
Found at i:733394 original size:21 final size:21
Alignment explanation
Indices: 733319--733394 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
733309 CTGCCAAGAA
* *
733319 ATGTATCGATACAACTTTTTT
1 ATGTATCGATACATCTTTTTC
****
733340 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
733360 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
733381 ATGTATCGATACAT
1 ATGTATCGATACAT
733395 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:734079 original size:23 final size:23
Alignment explanation
Indices: 734049--734095 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
734039 ATCTCCCCCT
*
734049 TAATCAAGTGATTCATATCAAAA
1 TAATCAAGTAATTCATATCAAAA
734072 TAATCAAGTAATTCATATCAAAA
1 TAATCAAGTAATTCATATCAAAA
734095 T
1 T
734096 TTATTTGCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.49, C:0.13, G:0.06, T:0.32
Consensus pattern (23 bp):
TAATCAAGTAATTCATATCAAAA
Found at i:735899 original size:13 final size:13
Alignment explanation
Indices: 735881--735919 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
735871 ATAATCACCC
*
735881 TGTATCGATACAG
1 TGTATCGATACAA
735894 TGTATCGATACAA
1 TGTATCGATACAA
735907 TGTATCGATACAA
1 TGTATCGATACAA
735920 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:735930 original size:20 final size:20
Alignment explanation
Indices: 735905--735983 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
735895 GTATCGATAC
735905 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
735925 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
735950 GATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
735970 CATGTATCGATACA
1 AATGTATCGATACA
735984 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 32 0.65
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:738018 original size:15 final size:15
Alignment explanation
Indices: 737998--738028 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
737988 ATTTCGTTTG
*
737998 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
738013 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
738028 G
1 G
738029 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:742109 original size:13 final size:13
Alignment explanation
Indices: 742091--742116 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
742081 CAATTTTTTG
742091 TGTATCGATACAT
1 TGTATCGATACAT
742104 TGTATCGATACAT
1 TGTATCGATACAT
742117 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:742201 original size:20 final size:20
Alignment explanation
Indices: 742176--742248 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
742166 CAACTTTTTT
742176 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
742196 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
742217 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
742237 ATGTATCGATAC
1 ATGTATCGATAC
742249 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:742214 original size:41 final size:41
Alignment explanation
Indices: 742155--742248 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
742145 CTGCCAAGAA
*
742155 ATGTATCGATACAACTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
*
742196 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
742237 ATGTATCGATAC
1 ATGTATCGATAC
742249 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
Found at i:742230 original size:21 final size:21
Alignment explanation
Indices: 742155--742230 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
742145 CTGCCAAGAA
* *
742155 ATGTATCGATACAACTTTTTT
1 ATGTATCGATACATCTTTTTC
****
742176 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
742196 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
742217 ATGTATCGATACAT
1 ATGTATCGATACAT
742231 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:747373 original size:48 final size:48
Alignment explanation
Indices: 747317--747423 Score: 135
Period size: 48 Copynumber: 2.2 Consensus size: 48
747307 CAATGTGCCA
* *
747317 ATTCAAGGCCAACAACATCGAA-CTAAGGGAAAAGTGGACAATGTGTTG
1 ATTCAAGGCCAACAACAT-GAAGCTAAGGGAAAAGTGGACAATATGCTG
* * * *
747365 ATTCAAGGCTAGCGACATTAAGCTAAGGGAAAAGTGGACAATATGCTG
1 ATTCAAGGCCAACAACATGAAGCTAAGGGAAAAGTGGACAATATGCTG
*
747413 ATTCAAAGCCA
1 ATTCAAGGCCA
747424 GCGACATTGA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
47 2 0.04
48 48 0.96
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (48 bp):
ATTCAAGGCCAACAACATGAAGCTAAGGGAAAAGTGGACAATATGCTG
Found at i:747427 original size:48 final size:48
Alignment explanation
Indices: 747339--747438 Score: 155
Period size: 48 Copynumber: 2.1 Consensus size: 48
747329 CAACATCGAA
* * * *
747339 CTAAGGGAAAAGTGGACAATGTGTTGATTCAAGGCTAGCGACATTAAG
1 CTAAGGGAAAAGTGGACAATATGCTGATTCAAAGCCAGCGACATTAAG
*
747387 CTAAGGGAAAAGTGGACAATATGCTGATTCAAAGCCAGCGACATTGAG
1 CTAAGGGAAAAGTGGACAATATGCTGATTCAAAGCCAGCGACATTAAG
747435 CTAA
1 CTAA
747439 TAAAGGTGCC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.37, C:0.15, G:0.27, T:0.21
Consensus pattern (48 bp):
CTAAGGGAAAAGTGGACAATATGCTGATTCAAAGCCAGCGACATTAAG
Found at i:747607 original size:28 final size:28
Alignment explanation
Indices: 747550--748084 Score: 564
Period size: 28 Copynumber: 18.8 Consensus size: 28
747540 TTTTTAAAAA
*
747550 AAAAG-TGCCACTAACTTATGTGGGCTTTG
1 AAAAGATGCCACTGAC-T-TGTGGGCTTTG
* *
747579 AAGAGATGCCACTAACTTGTGGGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTG
* *
747607 AAAGGATGCCACTGAGTTGTGGGCTTT-
1 AAAAGATGCCACTGACTTGTGGGCTTTG
* *
747634 AGAAGGATGCCACTGAC-TCTGGGCTTT-
1 A-AAAGATGCCACTGACTTGTGGGCTTTG
* * *
747661 AGAAGGATGCCACTAACTCGTGGGCTTTG
1 A-AAAGATGCCACTGACTTGTGGGCTTTG
*
747690 AAAATG-TGCCACTGACTTGTGGGCTTGG
1 AAAA-GATGCCACTGACTTGTGGGCTTTG
*
747718 AAAAGATGCCATTGACTTGTGGGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTG
* * *
747746 AAAAGATACCACCGATTTGTGGGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTG
*
747774 AAAAGATGCCACCGACTTGTGGGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTG
*
747802 AAAAGATGCCA-TCGACTTGTGGGCTTGG
1 AAAAGATGCCACT-GACTTGTGGGCTTTG
*
747830 AAAAGATGCCATTGACTTGTGGGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTG
*
747858 AAAAGATACCA-TCGACTTGTGGGCTTTG
1 AAAAGATGCCACT-GACTTGTGGGCTTTG
* *
747886 AAAAGATGCCACCGACTTGTGGACTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTG
* *
747914 AAAGGATGCCATTGACTTGTGGGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTG
* *
747942 AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTG
* *
747970 AAAAGATGCTA-TCGACTTATGGGCTTTG
1 AAAAGATGCCACT-GACTTGTGGGCTTTG
* * **
747998 AAATGGGTTGCCACCAACTTGTGTGGGCTTTG
1 AAA--AGATGCCACTGAC-T-TGTGGGCTTTG
* *
748030 AAATGAGTTGCCACCGACTTGTGTGGGCTTTG
1 AAA--AGATGCCACTGAC-T-TGTGGGCTTTG
*
748062 AAAAGATGCCACCGACTTGTGGG
1 AAAAGATGCCACTGACTTGTGGG
748085 TGTCGTAACG
Statistics
Matches: 442, Mismatches: 48, Indels: 33
0.85 0.09 0.06
Matches are distributed among these distances:
27 29 0.07
28 331 0.75
29 9 0.02
30 29 0.07
31 1 0.00
32 43 0.10
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.28
Consensus pattern (28 bp):
AAAAGATGCCACTGACTTGTGGGCTTTG
Found at i:748030 original size:32 final size:32
Alignment explanation
Indices: 747989--748082 Score: 138
Period size: 32 Copynumber: 3.0 Consensus size: 32
747979 TATCGACTTA
*
747989 TGGGCTTTGAAATGGGTTGCCACCAACTTGTG
1 TGGGCTTTGAAATGAGTTGCCACCAACTTGTG
*
748021 TGGGCTTTGAAATGAGTTGCCACCGACTTGTG
1 TGGGCTTTGAAATGAGTTGCCACCAACTTGTG
* *
748053 TGGGCTTTGAAA--AGATGCCACCGACTTGTG
1 TGGGCTTTGAAATGAGTTGCCACCAACTTGTG
748083 GGTGTCGTAA
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
30 17 0.29
32 42 0.71
ACGTcount: A:0.20, C:0.19, G:0.31, T:0.30
Consensus pattern (32 bp):
TGGGCTTTGAAATGAGTTGCCACCAACTTGTG
Found at i:751269 original size:52 final size:52
Alignment explanation
Indices: 751184--751308 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 52
751174 ATATGAAAAG
* *
751184 TTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATTTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
751236 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
* *
751288 ATGCCTACATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
751309 AAGATCAGTG
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 68 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:751321 original size:52 final size:51
Alignment explanation
Indices: 751185--751328 Score: 191
Period size: 52 Copynumber: 2.8 Consensus size: 51
751175 TATGAAAAGT
* *
751185 TGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATTTGGGCAAATT
1 TGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATA
* *
751237 TGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATA
1 TGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATA
* *
751289 TGCCTACATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
751329 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.33
Consensus pattern (51 bp):
TGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATA
Found at i:751335 original size:13 final size:13
Alignment explanation
Indices: 751317--751341 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
751307 CAAAGATCAG
751317 TGTATCGATACAA
1 TGTATCGATACAA
751330 TGTATCGATACA
1 TGTATCGATACA
751342 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:751363 original size:86 final size:84
Alignment explanation
Indices: 751244--751427 Score: 221
Period size: 86 Copynumber: 2.2 Consensus size: 84
751234 ATTTGCCTGC
* *
751244 ATGTATCGATACATTTTATAATGTATCGATACA-TCTGGGCAAATATGCCTACA-TGTATCGATA
1 ATGTATCGATACATTTGATAATGTATCGATACATTCTGGGC-AATA-GCCTAAATTGTATCGATA
751307 CAAAGA-TCAGTGTATCGATACA
64 CAAA-ACTCA-TGTATCGATACA
* * * *
751329 ATGTATCGATACATTTGAGTAATGTATCGATACATTTTTTGGCAGTAGCTTAAATTGTATCGATA
1 ATGTATCGATACATTTGA-TAATGTATCGATACA-TTCTGGGCAATAGCCTAAATTGTATCGATA
*
751394 CAAAACTTATGTATCGATACA
64 CAAAACTCATGTATCGATACA
*
751415 TTGTATCGATACA
1 ATGTATCGATACA
751428 ACACTTTATG
Statistics
Matches: 86, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
85 17 0.20
86 45 0.52
87 19 0.22
88 5 0.06
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (84 bp):
ATGTATCGATACATTTGATAATGTATCGATACATTCTGGGCAATAGCCTAAATTGTATCGATACA
AAACTCATGTATCGATACA
Found at i:751421 original size:13 final size:13
Alignment explanation
Indices: 751403--751427 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
751393 ACAAAACTTA
751403 TGTATCGATACAT
1 TGTATCGATACAT
751416 TGTATCGATACA
1 TGTATCGATACA
751428 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:751423 original size:32 final size:33
Alignment explanation
Indices: 751382--751447 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
751372 AGTAGCTTAA
751382 ATTGTATCGATACAAAAC-TTATGTATCGATAC
1 ATTGTATCGATACAAAACTTTATGTATCGATAC
*
751414 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAACTTTATGTATCGATAC
751447 A
1 A
751448 AATCGTTGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 17 0.53
33 15 0.47
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (33 bp):
ATTGTATCGATACAAAACTTTATGTATCGATAC
Found at i:751893 original size:32 final size:30
Alignment explanation
Indices: 751741--752255 Score: 374
Period size: 28 Copynumber: 17.4 Consensus size: 30
751731 AGTGTCTACA
* * *
751741 GTGGGCTTTGAAAAGATGCCACCGAC-T-T
1 GTGGGCTTTGAAAGGGTGCCACTGACTTGT
* * *
751769 ATGGACTTTGAAAGGATGCCACTGAC-T-T
1 GTGGGCTTTGAAAGGGTGCCACTGACTTGT
*
751797 GTGGGCTTTGAAAGGGTGCCACTGA-GT-T
1 GTGGGCTTTGAAAGGGTGCCACTGACTTGT
* * * * *
751825 GCGAGCTTTGAAAAGATGCCACCGAC-T-T
1 GTGGGCTTTGAAAGGGTGCCACTGACTTGT
* **
751853 ATGGGCTTTGAAATGGGTTGCCACCAACTTGT
1 GTGGGCTTTGAAA-GGG-TGCCACTGACTTGT
* * *
751885 GTGGGCTTTGAAATGAGTTACCACCGACTTGT
1 GTGGGCTTTGAAA-G-GGTGCCACTGACTTGT
* *
751917 GTGGGCTTTGAAATGAGTGCCATTGACTTGT
1 GTGGGCTTTGAAA-GGGTGCCACTGACTTGT
*
751948 GTGGGCTTTGAAATGAGTTGCCACTGACTTGT
1 GTGGGCTTTGAAA-G-GGTGCCACTGACTTGT
*
751980 GTGGGCTTTGAAAGGAGTTGCCACCGACTTGT
1 GTGGGCTTTGAAAGG-G-TGCCACTGACTTGT
*
752012 GTGGGCTTTGAAAGGAGTGCCACTAACTTGT
1 GTGGGCTTTGAAAGG-GTGCCACTGACTTGT
*
752043 GTGGGCTTTGAAAGGAGTGCCACTAAC-T-T
1 GTGGGCTTTGAAAGG-GTGCCACTGACTTGT
**
752072 GTGGGCTTTGAAAGGGTGCCACT-AAGT-T
1 GTGGGCTTTGAAAGGGTGCCACTGACTTGT
* * * * *
752100 GTGGAC-TTAAAAGGGTACC-GTAGA-GT-T
1 GTGGGCTTTGAAAGGGTGCCACT-GACTTGT
** *
752127 GTGGATTTTGAAAGGATGCCACTGAC-T-T
1 GTGGGCTTTGAAAGGGTGCCACTGACTTGT
*
752155 GTGGGCTTTGAAAGGGTGCCACGGAC-T-T
1 GTGGGCTTTGAAAGGGTGCCACTGACTTGT
* * *
752183 GT-GGCTTTTGAAAAGATGCCACCGAC-T-T
1 GTGGGC-TTTGAAAGGGTGCCACTGACTTGT
**
752211 GTGGGCTTTGAAATGGGTTGCCACCAACTTGT
1 GTGGGCTTTGAAA-GGG-TGCCACTGACTTGT
752243 GTGGGCTTTGAAA
1 GTGGGCTTTGAAA
752256 TAGGTGTTGC
Statistics
Matches: 411, Mismatches: 54, Indels: 40
0.81 0.11 0.08
Matches are distributed among these distances:
26 1 0.00
27 23 0.06
28 164 0.40
29 22 0.05
30 20 0.05
31 68 0.17
32 112 0.27
33 1 0.00
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (30 bp):
GTGGGCTTTGAAAGGGTGCCACTGACTTGT
Found at i:751950 original size:63 final size:64
Alignment explanation
Indices: 751854--752256 Score: 326
Period size: 63 Copynumber: 6.7 Consensus size: 64
751844 CACCGACTTA
* *
751854 TGGGCTTTGAAATGG-GTTGCCACCAACTTGTGTGGGCTTTGAAATGAGTTACCACCGACTTGTG
1 TGGGCTTTGAAA-GGAGTTGCCACCAACTTGTGTGGGCTTTGAAATGAGTTGCCACTGACTTGTG
* ***
751918 TGGGCTTTGAAATGAG-TGCCATTGACTTGTGTGGGCTTTGAAATGAGTTGCCACTGACTTGTG
1 TGGGCTTTGAAAGGAGTTGCCACCAACTTGTGTGGGCTTTGAAATGAGTTGCCACTGACTTGTG
* * *
751981 TGGGCTTTGAAAGGAGTTGCCACCGACTTGTGTGGGCTTTGAAAGGAG-TGCCACTAACTTGTG
1 TGGGCTTTGAAAGGAGTTGCCACCAACTTGTGTGGGCTTTGAAATGAGTTGCCACTGACTTGTG
* * **
752044 TGGGCTTTGAAAGGAG-TGCCACTAAC-T-TGTGGGCTTTGAAA-G-GGTGCCACT-AAGT-TG
1 TGGGCTTTGAAAGGAGTTGCCACCAACTTGTGTGGGCTTTGAAATGAGTTGCCACTGACTTGTG
* * * ** * ** *
752101 TGGAC-TTAAAAGG-G-TACC-GTAGA-GT-TGTGGATTTTGAAA-G-GATGCCACTGAC-T-TG
1 TGGGCTTTGAAAGGAGTTGCCACCA-ACTTGTGTGGGCTTTGAAATGAGTTGCCACTGACTTGTG
** * *
752156 TGGGCTTTGAAAGG-G-TGCCACGGAC-T-TGT-GGCTTTTGAAA--AGATGCCACCGAC-T-TG
1 TGGGCTTTGAAAGGAGTTGCCACCAACTTGTGTGGGC-TTTGAAATGAGTTGCCACTGACTTGTG
752212 TGGGCTTTGAAATGG-GTTGCCACCAACTTGTGTGGGCTTTGAAAT
1 TGGGCTTTGAAA-GGAGTTGCCACCAACTTGTGTGGGCTTTGAAAT
752257 AGGTGTTGCC
Statistics
Matches: 288, Mismatches: 34, Indels: 37
0.80 0.09 0.10
Matches are distributed among these distances:
54 2 0.01
55 35 0.12
56 57 0.20
57 9 0.03
58 11 0.04
59 9 0.03
60 24 0.08
61 4 0.01
62 8 0.03
63 88 0.31
64 41 0.14
ACGTcount: A:0.22, C:0.16, G:0.32, T:0.30
Consensus pattern (64 bp):
TGGGCTTTGAAAGGAGTTGCCACCAACTTGTGTGGGCTTTGAAATGAGTTGCCACTGACTTGTG
Found at i:751962 original size:95 final size:95
Alignment explanation
Indices: 751854--752255 Score: 359
Period size: 95 Copynumber: 4.5 Consensus size: 95
751844 CACCGACTTA
* *
751854 TGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTGAAATGAGTTACCACCGACTTGTGT
1 TGGGCTTTGAAATGGGTTGCCACTAACTTGTGTGGGCTTTGAAAGGAGTTACCACCGACTTGTGT
* * *
751919 GGGCTTTGAAATGAGTGCCATTGACTTGTG
66 GGGCTTTGAAAGGAGTGCCACTAACTTGTG
* * *
751949 TGGGCTTTGAAATGAGTTGCCACTGACTTGTGTGGGCTTTGAAAGGAGTTGCCACCGACTTGTGT
1 TGGGCTTTGAAATGGGTTGCCACTAACTTGTGTGGGCTTTGAAAGGAGTTACCACCGACTTGTGT
752014 GGGCTTTGAAAGGAGTGCCACTAACTTGTG
66 GGGCTTTGAAAGGAGTGCCACTAACTTGTG
* * **
752044 TGGGCTTTGAAA-GGAG-TGCCACTAAC-T-TGTGGGCTTTGAAAGG-G-TGCCA-CTAAGT-TG
1 TGGGCTTTGAAATGG-GTTGCCACTAACTTGTGTGGGCTTTGAAAGGAGTTACCACCGACTTGTG
* * * * *
752101 TGGAC-TTAAAAGG-GTACC-GTAGA-GT-TG
65 TGGGCTTTGAAAGGAGTGCCACTA-ACTTGTG
** * * * *
752128 TGGATTTTGAAA--GGATGCCACTGAC-T-TGTGGGCTTTGAAAGG-G-TGCCACGGAC-T-TGT
1 TGGGCTTTGAAATGGGTTGCCACTAACTTGTGTGGGCTTTGAAAGGAGTTACCACCGACTTGTGT
* **
752185 -GGCTTTTGAAAAGA-TGCCACCGAC-T-TG
66 GGGC-TTTGAAAGGAGTGCCACTAACTTGTG
*
752212 TGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTGAAA
1 TGGGCTTTGAAATGGGTTGCCACTAACTTGTGTGGGCTTTGAAA
752256 TAGGTGTTGC
Statistics
Matches: 258, Mismatches: 36, Indels: 33
0.79 0.11 0.10
Matches are distributed among these distances:
82 3 0.01
83 37 0.14
84 36 0.14
85 3 0.01
86 15 0.06
87 8 0.03
88 20 0.08
89 3 0.01
90 5 0.02
91 1 0.00
92 16 0.06
93 1 0.00
94 10 0.04
95 100 0.39
ACGTcount: A:0.22, C:0.16, G:0.32, T:0.30
Consensus pattern (95 bp):
TGGGCTTTGAAATGGGTTGCCACTAACTTGTGTGGGCTTTGAAAGGAGTTACCACCGACTTGTGT
GGGCTTTGAAAGGAGTGCCACTAACTTGTG
Found at i:752278 original size:32 final size:29
Alignment explanation
Indices: 752242--752333 Score: 91
Period size: 28 Copynumber: 3.2 Consensus size: 29
752232 CACCAACTTG
*
752242 TGTGGGCTTTGAAATAGGTGTTGCCATGGAGT
1 TGTGGGATTTGAAA-AGG-G-TGCCATGGAGT
*
752274 TGT-GGATTTTAAAAGGGTGCCATGGAGT
1 TGTGGGATTTGAAAAGGGTGCCATGGAGT
* * *
752302 TGT-GGACTT-AAAAGGATGCCAAGGAGT
1 TGTGGGATTTGAAAAGGGTGCCATGGAGT
752329 TGTGG
1 TGTGG
752334 ACTTTAAAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
27 19 0.35
28 20 0.37
29 1 0.02
30 3 0.06
31 8 0.15
32 3 0.06
ACGTcount: A:0.24, C:0.09, G:0.37, T:0.30
Consensus pattern (29 bp):
TGTGGGATTTGAAAAGGGTGCCATGGAGT
Found at i:752321 original size:27 final size:27
Alignment explanation
Indices: 752263--752342 Score: 115
Period size: 27 Copynumber: 2.9 Consensus size: 27
752253 AAATAGGTGT
* *
752263 TGCCATGGAGTTGTGGATTTTAAAAGGG
1 TGCCATGGAGTTGTGGA-CTTAAAAGGA
752291 TGCCATGGAGTTGTGGACTTAAAAGGA
1 TGCCATGGAGTTGTGGACTTAAAAGGA
*
752318 TGCCAAGGAGTTGTGGACTTTAAAA
1 TGCCATGGAGTTGTGGAC-TTAAAA
752343 AGAAATGCCA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
27 25 0.52
28 23 0.48
ACGTcount: A:0.29, C:0.10, G:0.33, T:0.29
Consensus pattern (27 bp):
TGCCATGGAGTTGTGGACTTAAAAGGA
Found at i:753679 original size:22 final size:23
Alignment explanation
Indices: 753632--753705 Score: 66
Period size: 23 Copynumber: 3.2 Consensus size: 23
753622 TGTTGTTCCC
753632 TTTTTTATTTTGT-TTTTACACTT
1 TTTTTTATTTT-TCTTTTACACTT
753655 TTTTTTATTTTTCTTTT-CA-TAT
1 TTTTTTATTTTTCTTTTACACT-T
* *
753677 TTTTGTACTTTTGCTTTTGA-ACTT
1 TTTTTTA-TTTTTCTTTT-ACACTT
753701 TTTTT
1 TTTTT
753706 GGTCATTTTG
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
21 1 0.02
22 10 0.24
23 24 0.57
24 6 0.14
25 1 0.02
ACGTcount: A:0.12, C:0.09, G:0.05, T:0.73
Consensus pattern (23 bp):
TTTTTTATTTTTCTTTTACACTT
Found at i:756309 original size:20 final size:22
Alignment explanation
Indices: 756284--756377 Score: 105
Period size: 20 Copynumber: 4.6 Consensus size: 22
756274 TTTACCTAGA
756284 TGTATCGATACATTTTG-T-AT
1 TGTATCGATACATTTTGCTCAT
756304 TGTATCGATACA--TTGCTCAT
1 TGTATCGATACATTTTGCTCAT
*
756324 TGTATCGATACA--TGGCTCAT
1 TGTATCGATACATTTTGCTCAT
* *
756344 TGTATCGATACATTTT--ACAA
1 TGTATCGATACATTTTGCTCAT
756364 TGTATCGATACATT
1 TGTATCGATACATT
756378 CAGGCATTTT
Statistics
Matches: 66, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.05
19 1 0.02
20 61 0.92
22 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (22 bp):
TGTATCGATACATTTTGCTCAT
Found at i:756335 original size:40 final size:42
Alignment explanation
Indices: 756283--756377 Score: 119
Period size: 40 Copynumber: 2.4 Consensus size: 42
756273 GTTTACCTAG
*
756283 ATGTATCGATACATTTTG-T-ATTGTATCGATACATTGCT-CA
1 ATGTATCGATACATTTGGCTCATTGTATCGATACATT-CTACA
* *
756323 TTGTATCGATACA--TGGCTCATTGTATCGATACATTTTACA
1 ATGTATCGATACATTTGGCTCATTGTATCGATACATTCTACA
756363 ATGTATCGATACATT
1 ATGTATCGATACATT
756378 CAGGCATTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
38 2 0.04
39 2 0.04
40 42 0.91
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (42 bp):
ATGTATCGATACATTTGGCTCATTGTATCGATACATTCTACA
Found at i:758821 original size:51 final size:51
Alignment explanation
Indices: 758682--758825 Score: 164
Period size: 51 Copynumber: 2.8 Consensus size: 51
758672 TCCCGGTTCC
* * * *
758682 ATTTCCAAAACATCAATTTTTCTTAATCGAGGATACTCCAACTCCGGTTTT
1 ATTTTCAAAACATCAATTTTTCATAATCGGGGATACTCCAACTCCGATTTT
* ** *
758733 A-TTTCAAAAGCATCGATTTACCGTAATCGGGGATACTCCAACTCCGATTTT
1 ATTTTCAAAA-CATCAATTTTTCATAATCGGGGATACTCCAACTCCGATTTT
* * * *
758784 ATTTTCAAAACACCAATTTTTCACAATTGGGGGTACTCCAAC
1 ATTTTCAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
758826 CTCGTTATTT
Statistics
Matches: 76, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
50 7 0.09
51 61 0.80
52 8 0.11
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (51 bp):
ATTTTCAAAACATCAATTTTTCATAATCGGGGATACTCCAACTCCGATTTT
Found at i:758930 original size:28 final size:27
Alignment explanation
Indices: 758892--758962 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 27
758882 TTTCATAATC
* **
758892 GGGGGTACTCCAACCCTGTTATTTCATTA
1 GGGGATACTCCAACCC-GTTATTTC-CGA
758921 -GGGATACTCCAATCCCGTTATTTCCGA
1 GGGGATACTCCAA-CCCGTTATTTCCGA
758948 GGGGATACTCCAACC
1 GGGGATACTCCAACC
758963 TCGATTTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
27 3 0.08
28 31 0.84
29 3 0.08
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (27 bp):
GGGGATACTCCAACCCGTTATTTCCGA
Found at i:759010 original size:51 final size:52
Alignment explanation
Indices: 758948--759064 Score: 170
Period size: 51 Copynumber: 2.3 Consensus size: 52
758938 TTATTTCCGA
*
758948 GGGGATACTCCAACCT-CGATTTTATTTAT-AAAATACCAATTT-TCCACAATC
1 GGGGATACTCCAACCTCCGATTTTATTT-TCAAAACACCAATTTCT-CACAATC
*
758999 GGGGATGCTCCAA-CTCCGATTTTATTTTCAAAACACCAATTTCTCACAATC
1 GGGGATACTCCAACCTCCGATTTTATTTTCAAAACACCAATTTCTCACAATC
759050 GGGGATACTCCAACC
1 GGGGATACTCCAACC
759065 CTGTTACTTT
Statistics
Matches: 59, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
50 3 0.05
51 54 0.92
52 2 0.03
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (52 bp):
GGGGATACTCCAACCTCCGATTTTATTTTCAAAACACCAATTTCTCACAATC
Found at i:759137 original size:79 final size:78
Alignment explanation
Indices: 759006--759216 Score: 271
Period size: 79 Copynumber: 2.7 Consensus size: 78
758996 ATCGGGGATG
* * * *
759006 CTCCAACTCCGATTTTATTTTCAAAACACC-AATTTCTCACAATCGGGGATACTCCAACCCTGTT
1 CTCCAACCCCGATTTTA-TTTCAAAATACCGATTTTCT-ATAATCGGGGATACTCCAACCCTGTT
*
759070 ACTTTCGCGGGAATA
64 ACTTTCGAGGGAATA
*
759085 CTCCAACCCCGATTTTAGTTTCAAAATACCGATTTTCTATAATCAGGGATACTCCAACCCTGTTA
1 CTCCAACCCCGATTTTA-TTTCAAAATACCGATTTTCTATAATCGGGGATACTCCAACCCTGTTA
* * *
759150 TTTTTGAGGGGATA
65 CTTTCGAGGGAATA
* *
759164 CTCCAACCCCGATTTTTATTTCTAGAATACCGATTTTCCATAATCGGGGATAC
1 CTCCAACCCCGA-TTTTATTTC-AAAATACCGATTTTCTATAATCGGGGATAC
759217 GCTAGCCCTG
Statistics
Matches: 116, Mismatches: 13, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
79 78 0.67
80 38 0.33
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (78 bp):
CTCCAACCCCGATTTTATTTCAAAATACCGATTTTCTATAATCGGGGATACTCCAACCCTGTTAC
TTTCGAGGGAATA
Found at i:766706 original size:87 final size:88
Alignment explanation
Indices: 766463--766719 Score: 304
Period size: 88 Copynumber: 2.9 Consensus size: 88
766453 TATGTTTTTT
* *
766463 TTAAAAAAAATCAAATTATCTTTCGTGTAATTTTATCTTTAGGGAAACTCCATCTCCACTCCTCC
1 TTAAAAAAAATCAAATTTTCTTTCGTGTAATTTTATCTTTAGGGAAACTCCATCTCCACTCCTCT
* *
766528 GAGGGGATATTCTAACCTTGCTC
66 GAGGGGATACTCTAACCTCGCTC
* * * ** * * * *
766551 TTAAAAAAAATCAAATTTTCCTTCATGGAATTTTAT-TATTAGGGAAACTTTATCCCCATTTCTT
1 TTAAAAAAAATCAAATTTTCTTTCGTGTAATTTTATCT-TTAGGGAAACTCCATCTCCACTCCTC
*
766615 TGAGGGAATACTCTAAACC-CGCTC
65 TGAGGGGATACTCT-AACCTCGCTC
* * * *
766639 TT-AAAAAAGTCAAATTTTCTTTTGTATAATTTTATCTTTGGGGAAACTCCATCTCCACTCCTCT
1 TTAAAAAAAATCAAATTTTCTTTCGTGTAATTTTATCTTTAGGGAAACTCCATCTCCACTCCTCT
*
766703 GAGGGGATACTCCAACC
66 GAGGGGATACTCTAACC
766720 CCATTCTTCA
Statistics
Matches: 137, Mismatches: 29, Indels: 8
0.79 0.17 0.05
Matches are distributed among these distances:
86 4 0.03
87 59 0.43
88 70 0.51
89 4 0.03
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.36
Consensus pattern (88 bp):
TTAAAAAAAATCAAATTTTCTTTCGTGTAATTTTATCTTTAGGGAAACTCCATCTCCACTCCTCT
GAGGGGATACTCTAACCTCGCTC
Found at i:772552 original size:21 final size:19
Alignment explanation
Indices: 772505--772546 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
772495 TCAATTTGGA
772505 TGAAATAGTTATAATTTTT
1 TGAAATAGTTATAATTTTT
772524 TGAAATAGTTATAATTTTT
1 TGAAATAGTTATAATTTTT
772543 TGAA
1 TGAA
772547 CCATAGCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (19 bp):
TGAAATAGTTATAATTTTT
Found at i:773451 original size:157 final size:156
Alignment explanation
Indices: 773099--773555 Score: 453
Period size: 157 Copynumber: 2.9 Consensus size: 156
773089 TTTCCTTTCA
* ** * * *
773099 AAAATATTAAATTTTTTATCTCGGGGATACTCCAATCCCATCAA-TTCTGAGGGGATACTCTAAC
1 AAAATATTAAAATTTGCATCTCGAGGATACTCCAACCCCATCAATTTC-GAGGGGATACTCCAAC
* * * ** **
773163 CTCATTTTTATTTCTAAAATATTAAAATTTTCATTACGGGGATACTCCAACTCTGTTATTTTTGA
65 CTCATTTTTATTTC-AAAATATT-AAATTTTCATCACGGGAATACTCCAACCCCATTATTTTCAA
*
773228 GAGGATACTCCAACCCCATTTTTATTTTC
128 GAGGATACTCCAACCCCATTTTTATTTAC
* *
773257 AAAATATTAAAATTTTCATCTCGAGGATACTCTAACCCCATCAATTTCGAGGGGATACTCCAACC
1 AAAATATTAAAATTTGCATCTCGAGGATACTCCAACCCCATCAATTTCGAGGGGATACTCCAACC
* *
773322 TCGTTTTTATTTCAAAAATATTAAATTCTTCATCAC-GGAATATTCCAACCCCATTATTTTCAAG
66 TCATTTTTATTTC-AAAATATTAAATT-TTCATCACGGGAATACTCCAACCCCATTATTTTCAAG
* *
773386 -GAGATACTCTAACCTCATTTTTATTTAC
129 AG-GATACTCCAACCCCATTTTTATTTAC
* * * * * *
773414 AAAGTATTAAAATTTGCATCTTG-GAGATACTCCAACCCCATTC-TTTTCAAAGGAATACTCCAA
1 AAAATATTAAAATTTGCATCTCGAG-GATACTCCAACCCCA-TCAATTTCGAGGGGATACTCCAA
* * * * **
773477 CCCCATTTTTATTTTCAAAATATTAAAATTTGCATCTCTAGG-ATACTCCAACCCTGTT-TTTTC
64 CCTCATTTTTA-TTTCAAAATATT-AAATTTTCATCAC-GGGAATACTCCAACCCCATTATTTTC
773540 TAA-AGGGATACTCCAA
126 -AAGA-GGATACTCCAA
773556 TCCCTGCTTC
Statistics
Matches: 252, Mismatches: 35, Indels: 24
0.81 0.11 0.08
Matches are distributed among these distances:
156 2 0.01
157 127 0.50
158 117 0.46
159 6 0.02
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.37
Consensus pattern (156 bp):
AAAATATTAAAATTTGCATCTCGAGGATACTCCAACCCCATCAATTTCGAGGGGATACTCCAACC
TCATTTTTATTTCAAAATATTAAATTTTCATCACGGGAATACTCCAACCCCATTATTTTCAAGAG
GATACTCCAACCCCATTTTTATTTAC
Found at i:773545 original size:79 final size:79
Alignment explanation
Indices: 773094--773555 Score: 413
Period size: 79 Copynumber: 5.8 Consensus size: 79
773084 AAATTTTTCC
* * * * * * * * *
773094 TTTCAAAAATATTAAATTTTTTATCTCGGGGATACTCCAATCCCATCA-ATTCTGAGGGGATACT
1 TTTC-AAAATATTAAAATTTTCATCTCGAGGATACTCCAACCCCATTATTTTC-AAAGGAATACT
*
773158 CTAACCTCATTTTTA-
64 CCAACCTCATTTTTAT
* * ** * *
773173 TTTCTAAAATATTAAAATTTTCAT-TACGGGGATACTCCAACTCTGTTATTTTTGAGAGG-ATAC
1 TTTC-AAAATATTAAAATTTTCATCT-CGAGGATACTCCAACCCCATTA-TTTTCAAAGGAATAC
*
773236 TCCAACCCCATTTTTAT
63 TCCAACCTCATTTTTAT
* * * * * *
773253 TTTCAAAATATTAAAATTTTCATCTCGAGGATACTCTAACCCCATCAATTTCGAGGGGATACTCC
1 TTTCAAAATATTAAAATTTTCATCTCGAGGATACTCCAACCCCATTATTTTCAAAGGAATACTCC
*
773318 AACCTCGTTTTTA-
66 AACCTCATTTTTAT
* * *
773331 TTTCAAAAATATT-AAATTCTTCATCACG-GAATATTCCAACCCCATTATTTTC-AAGGAGATAC
1 TTTC-AAAATATTAAAATT-TTCATCTCGAGGATACTCCAACCCCATTATTTTCAAAGGA-ATAC
*
773393 TCTAACCTCATTTTTAT
63 TCCAACCTCATTTTTAT
* * * * *
773410 TTACAAAGTATTAAAATTTGCATCTTG-GAGATACTCCAACCCCATTCTTTTCAAAGGAATACTC
1 TTTCAAAATATTAAAATTTTCATCTCGAG-GATACTCCAACCCCATTATTTTCAAAGGAATACTC
*
773474 CAACCCCATTTTTAT
65 CAACCTCATTTTTAT
* * ** *
773489 TTTCAAAATATTAAAATTTGCATCTCTAGGATACTCCAACCCTGTT-TTTTCTAAAGGGATACTC
1 TTTCAAAATATTAAAATTTTCATCTCGAGGATACTCCAACCCCATTATTTTC-AAAGGAATACTC
773553 CAA
65 CAA
773556 TCCCTGCTTC
Statistics
Matches: 313, Mismatches: 55, Indels: 30
0.79 0.14 0.08
Matches are distributed among these distances:
77 3 0.01
78 71 0.23
79 224 0.72
80 13 0.04
81 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.37
Consensus pattern (79 bp):
TTTCAAAATATTAAAATTTTCATCTCGAGGATACTCCAACCCCATTATTTTCAAAGGAATACTCC
AACCTCATTTTTAT
Found at i:773696 original size:116 final size:116
Alignment explanation
Indices: 773492--773712 Score: 320
Period size: 116 Copynumber: 1.9 Consensus size: 116
773482 TTTTTATTTT
* ** * *
773492 CAAAATATTAAAATTTGCATCTCTAGGATACTCCAACCCTGTTTTTTCTAAAGGGATACTCCAAT
1 CAAAATATTAAAATTTGCATCTCGAGGATACTCCAACCCCATTATTTCCAAAGGGATACTCCAAT
*
773557 CCCTGCTTCTATTTCCAAAATATTGATTTTTCACTATCGGATATATTCTAA
66 CCCTGCTTCTATTTCCAAAATATTGATTTTTCACCATCGGATATATTCTAA
* * *
773608 CAAAATATTAAAATTTTCATCTCGAGGATACTCTAACCCCATTATTTCCAAGGGGATACTCCAA-
1 CAAAATATTAAAATTTGCATCTCGAGGATACTCCAACCCCATTATTTCCAAAGGGATACTCCAAT
*
773672 CCCTTG-TCTCTATTTCTAAAATATTGATTTTTCACCATCGG
66 CCC-TGCT-TCTATTTCCAAAATATTGATTTTTCACCATCGG
773713 GATACTCCAA
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
115 4 0.04
116 89 0.96
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.37
Consensus pattern (116 bp):
CAAAATATTAAAATTTGCATCTCGAGGATACTCCAACCCCATTATTTCCAAAGGGATACTCCAAT
CCCTGCTTCTATTTCCAAAATATTGATTTTTCACCATCGGATATATTCTAA
Found at i:777761 original size:13 final size:13
Alignment explanation
Indices: 777743--777768 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
777733 CAATTTTTTG
777743 TGTATCGATACAT
1 TGTATCGATACAT
777756 TGTATCGATACAT
1 TGTATCGATACAT
777769 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:780166 original size:21 final size:21
Alignment explanation
Indices: 780142--780188 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
780132 TTTGATGCTG
780142 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
780162 -TATTTGAAGTGAAAAACAAGT
1 AT-TTTGAAGTGAAAAACAAGT
780183 ATTTTG
1 ATTTTG
780189 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 9 0.39
22 9 0.39
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:780327 original size:13 final size:13
Alignment explanation
Indices: 780309--780347 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
780299 ATAATCACCC
*
780309 TGTATCGATACAG
1 TGTATCGATACAA
780322 TGTATCGATACAA
1 TGTATCGATACAA
780335 TGTATCGATACAA
1 TGTATCGATACAA
780348 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:780358 original size:20 final size:20
Alignment explanation
Indices: 780333--780412 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
780323 GTATCGATAC
780333 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
780353 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
780378 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
780398 CATGTATCGATACAA
1 AATGTATCGATACAA
780413 TTTGGACATT
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:782441 original size:15 final size:15
Alignment explanation
Indices: 782421--782451 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
782411 ATTTCGTTTG
*
782421 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
782436 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
782451 G
1 G
782452 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:784284 original size:21 final size:21
Alignment explanation
Indices: 784255--784299 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
784245 AAGTTTTCAT
*
784255 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
784275 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
784297 TTT
1 TTT
784300 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:786535 original size:13 final size:13
Alignment explanation
Indices: 786517--786542 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
786507 CAATTTTTTG
786517 TGTATCGATACAT
1 TGTATCGATACAT
786530 TGTATCGATACAT
1 TGTATCGATACAT
786543 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:796868 original size:19 final size:20
Alignment explanation
Indices: 796843--796882 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
796833 ACAACTTTCG
*
796843 AAAAAAATAAAAAA-AGGAAC
1 AAAAAAACAAAAAAGA-GAAC
796863 AAAAAAACAAAAAAGAGAAC
1 AAAAAAACAAAAAAGAGAAC
796883 GAGAACCAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.80, C:0.07, G:0.10, T:0.03
Consensus pattern (20 bp):
AAAAAAACAAAAAAGAGAAC
Found at i:802159 original size:71 final size:71
Alignment explanation
Indices: 802026--802762 Score: 477
Period size: 71 Copynumber: 10.3 Consensus size: 71
802016 CTCATTTTCC
* ** * ** *
802026 TCTAGTCTTCAAAGAGCAGGCAACTTTTTT-TTCTTTCAAAGCCCACATAAATTGGTGGCATCAC
1 TCTAGTCCTCAAAGAGCAGG-ATGTTTTTTCTTC-TTCAAAGCCCACACAAGCTAGTGGCATCAC
802090 TTATCTTT
64 TTATCTTT
* * *
802098 TCTAGTCCTCAAAGAGCAGGATGTTTTTTCCTCTTCAAAGCCTACAAAAGCTAGTGGCATCACTT
1 TCTAGTCCTCAAAGAGCAGGATGTTTTTTCTTCTTCAAAGCCCACACAAGCTAGTGGCATCACTT
*
802163 AACTTT
66 ATCTTT
* ** * * * *
802169 TCTAGTCCTTAAAGAATAGGATGCCTTTTCTTTTTCTACGAAGACCACACAAGCTAGTGGCATCA
1 TCTAGTCCTCAAAGAGCAGGATG--TTTT-TTCTTCTTCAAAGCCCACACAAGCTAGTGGCATCA
802234 CTTATCTTT
63 CTTATCTTT
* * ** * ** * * *
802243 TATAGCCCTTCAAAGAATATGATGCCTTTTCTTCTCCAAAGCCAACACAAGCTAGTGGCATCATT
1 TCTAGTCC-TCAAAGAGCAGGATGTTTTTTCTTCTTCAAAGCCCACACAAGCTAGTGGCATCACT
802308 TATCTTCT
65 TATCTT-T
* * * * *** * * * * *
802316 T-TAATCCTTAAAAAGCAAGATACCTTGTCTTCTTTAATAAAGCTCACACAAGTTGGTGGCATCA
1 TCTAGTCCTCAAAGAGCAGGATGTTTTTTCTTC-TT--CAAAGCCCACACAAGCTAGTGGCATCA
*
802380 TTTATCTTT
63 CTTATCTTT
* * * * * *
802389 TCCA-ACCTTCAAAGAGCCA-GATGCCTTTTTCTTTTTCAAAGCCAACACAAGCTGGTGGCATCA
1 TCTAGTCC-TCAAAGAG-CAGGATG-TTTTTTCTTCTTCAAAGCCCACACAAGCTAGTGGCATCA
*
802452 CTTATCATT
63 CTTATCTTT
* * ** * * * *
802461 TCTAGTCCTCAAA-AGGCATGATGTTTTTTTTTAGT-AAAGCCCACATAAACTGGTGTCATCACT
1 TCTAGTCCTCAAAGA-GCAGGATGTTTTTTCTTCTTCAAAGCCCACACAAGCTAGTGGCATCACT
*
802524 TGTCTTT
65 TATCTTT
* * * * * * * *
802531 TCCAATCCTCAAAGAGCAGGATGTCTTTTT-TTCTTCAAAGCCTACACAAGTTGGTGGTATTATT
1 TCTAGTCCTCAAAGAGCAGGATGT-TTTTTCTTCTTCAAAGCCCACACAAGCTAGTGGCATCACT
802595 TATCTTAT
65 TATCTT-T
* ** ** * * ** *
802603 TC-AGTCTTTGAAGAATAGGATGTCTTTTCTTTTTTTTAAGCCCACACAAGCTAGTGGCATTA-T
1 TCTAGTCCTCAAAGAGCAGGATGTTTTTTC-TTCTTCAAAGCCCACACAAGCTAGTGGCATCACT
802666 ATATCTTT
65 -TATCTTT
* * ** * * * **
802674 TTTAGTCCTTAAAGAGCAGGATGCCTTTTCTTATTCAAAGCCCACATAAGCTAGTAGCATCGTTT
1 TCTAGTCCTCAAAGAGCAGGATGTTTTTTCTTCTTCAAAGCCCACACAAGCTAGTGGCATCACTT
802739 ATCTTAT
66 ATCTT-T
802746 T-TAGTCCTCAAAGAGCA
1 TCTAGTCCTCAAAGAGCA
802763 AGACGCCTAC
Statistics
Matches: 523, Mismatches: 116, Indels: 53
0.76 0.17 0.08
Matches are distributed among these distances:
70 55 0.11
71 183 0.35
72 165 0.32
73 14 0.03
74 84 0.16
75 22 0.04
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.36
Consensus pattern (71 bp):
TCTAGTCCTCAAAGAGCAGGATGTTTTTTCTTCTTCAAAGCCCACACAAGCTAGTGGCATCACTT
ATCTTT
Found at i:802273 original size:146 final size:145
Alignment explanation
Indices: 802080--802759 Score: 593
Period size: 146 Copynumber: 4.7 Consensus size: 145
802070 ACATAAATTG
** * *
802080 GTGGCATCACTTATCTTTTCTAGTCC-TCAAAGAGCAGGATGTTTTTTCCTCTTCAAAGCCTACA
1 GTGGCATCACTTATCTTTTCTAGTCCTTCAAAGAGCAGGATGCCTTTTCTTCTTCAAAGCCAACA
* * *
802144 AAAGCTAGTGGCATCACTTAACTT-TTCTAGTCCTTAAAGAATAGGATGCCTTTTCTTTTTCTAC
66 CAAGCTAGTGGCATCACTTATCTTATTCTAGTCCTTAAAGAATAGGATGCCTTTTCTTTTTATA-
*
802208 GAAGACCACACAAGCTA
130 -AAGCCCACACAAGCTA
* * ** * *
802225 GTGGCATCACTTATCTTTTATAGCCCTTCAAAGAATATGATGCCTTTTCTTCTCCAAAGCCAACA
1 GTGGCATCACTTATCTTTTCTAGTCCTTCAAAGAGCAGGATGCCTTTTCTTCTTCAAAGCCAACA
* * * * * * *
802290 CAAGCTAGTGGCATCATTTATCTTCTT-TAATCCTTAAA-AAGCAAGATACCTTGTCTTCTTTAA
66 CAAGCTAGTGGCATCACTTATCTTATTCTAGTCCTTAAAGAA-TAGGATGCCTTTTCTT-TTT-A
* * *
802353 TAAAGCTCACACAAGTTG
128 TAAAGCCCACACAAGCTA
* * * *
802371 GTGGCATCATTTATCTTTTCCA-ACCTTCAAAGAGCCA-GATGCCTTTTTCTTTTTCAAAGCCAA
1 GTGGCATCACTTATCTTTTCTAGTCCTTCAAAGAG-CAGGATGCC-TTTTCTTCTTCAAAGCCAA
* * * *
802434 CACAAGCTGGTGGCATCACTTATCAT-TTCTAGTCCTCAAAAGGCAT--GATG--TTTT-TTTTT
64 CACAAGCTAGTGGCATCACTTATCTTATTCTAGTCCT-TAAA-GAATAGGATGCCTTTTCTTTTT
* * *
802493 AGTAAAGCCCACATAAACTG
127 A-TAAAGCCCACACAAGCTA
* * * * * * *
802513 GTGTCATCACTTGTCTTTTCCAATCC-TCAAAGAGCAGGATGTCTTTTTTTCTTCAAAGCCTACA
1 GTGGCATCACTTATCTTTTCTAGTCCTTCAAAGAGCAGGATGCCTTTTCTTCTTCAAAGCCAACA
* * * * * * * * * *
802577 CAAGTTGGTGGTATTATTTATCTTATTC-AGTCTTTGAAGAATAGGATGTCTTTTCTTTTTTTTA
66 CAAGCTAGTGGCATCACTTATCTTATTCTAGTCCTTAAAGAATAGGATGCCTTTTCTTTTTATAA
802641 AGCCCACACAAGCTA
131 AGCCCACACAAGCTA
* * * *
802656 GTGGCATTA-TATATCTTTTTTAGTCCTT-AAAGAGCAGGATGCCTTTTCTTATTCAAAGCCCAC
1 GTGGCATCACT-TATCTTTTCTAGTCCTTCAAAGAGCAGGATGCCTTTTCTTCTTCAAAGCCAAC
* * ** *
802719 ATAAGCTAGTAGCATCGTTTATCTTATT-TAGTCCTCAAAGA
65 ACAAGCTAGTGGCATCACTTATCTTATTCTAGTCCTTAAAGA
802760 GCAAGACGCC
Statistics
Matches: 426, Mismatches: 86, Indels: 48
0.76 0.15 0.09
Matches are distributed among these distances:
139 3 0.01
140 2 0.00
141 49 0.12
142 53 0.12
143 101 0.24
144 9 0.02
145 44 0.10
146 154 0.36
147 8 0.02
148 2 0.00
149 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.36
Consensus pattern (145 bp):
GTGGCATCACTTATCTTTTCTAGTCCTTCAAAGAGCAGGATGCCTTTTCTTCTTCAAAGCCAACA
CAAGCTAGTGGCATCACTTATCTTATTCTAGTCCTTAAAGAATAGGATGCCTTTTCTTTTTATAA
AGCCCACACAAGCTA
Found at i:802540 original size:70 final size:70
Alignment explanation
Indices: 802369--802562 Score: 187
Period size: 70 Copynumber: 2.7 Consensus size: 70
802359 TCACACAAGT
* * * **
802369 TGGTGGCATCATTTATCTTTTCCAA-CCTTCAAAGAGCCA-GATGCCTTTTTCTTTTTCAAAGCC
1 TGGTGGCATCACTTATCATTTCCAATCC-TCAAAGAG-CAGGATGTCTTTTT-TTAGT-AAAGCC
*
802432 AACACAAGC
62 AACACAAAC
* * * * *
802441 TGGTGGCATCACTTATCATTTCTAGTCCTCAAA-AGGCATGATGTTTTTTTTTAGTAAAGCCCAC
1 TGGTGGCATCACTTATCATTTCCAATCCTCAAAGA-GCAGGATGTCTTTTTTTAGTAAAGCCAAC
*
802505 ATAAAC
65 ACAAAC
* * *
802511 TGGTGTCATCACTTGTCTTTTCCAATCCTCAAAGAGCAGGATGTCTTTTTTT
1 TGGTGGCATCACTTATCATTTCCAATCCTCAAAGAGCAGGATGTCTTTTTTT
802563 CTTCAAAGCC
Statistics
Matches: 100, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
70 55 0.55
71 7 0.07
72 36 0.36
73 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (70 bp):
TGGTGGCATCACTTATCATTTCCAATCCTCAAAGAGCAGGATGTCTTTTTTTAGTAAAGCCAACA
CAAAC
Found at i:806137 original size:88 final size:88
Alignment explanation
Indices: 805961--806167 Score: 204
Period size: 89 Copynumber: 2.3 Consensus size: 88
805951 AAAAATTTTC
* * *
805961 AATCTTTTGGGAAACTCCATC-CCTACTCTTCCAAGGGGACAATCCAACCCTACTCTTAAAAACA
1 AATCTTTAGGGAAACTCCATCTCC-ACTCATCCAAGGAGACAATCCAACCCTACTCTTAAAAACA
*
806025 AATCAAATTTTCTTTTATGGAATTT
65 AATCAAATTTTCTTGTAT-GAATTT
* * * * * * * *
806050 AATCTTTGGGGGAACTCCATCTCCACTCATCCGAGGAGACACTCCAACCTTGCTTTTTAAAA-AA
1 AATCTTTAGGGAAACTCCATCTCCACTCATCCAAGGAGACAATCCAACCCTACTCTTAAAAACAA
*
806114 ATCTAATTTTCCATTGTAT-AATTT
66 ATCAAATTTT-C-TTGTATGAATTT
* * * *
806138 TACCTCTAGTGAAACTCCATCTCCACTCAT
1 AATCTTTAGGGAAACTCCATCTCCACTCAT
806168 TTGAAGGGAC
Statistics
Matches: 97, Mismatches: 18, Indels: 7
0.80 0.15 0.06
Matches are distributed among these distances:
88 40 0.41
89 50 0.52
90 7 0.07
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (88 bp):
AATCTTTAGGGAAACTCCATCTCCACTCATCCAAGGAGACAATCCAACCCTACTCTTAAAAACAA
ATCAAATTTTCTTGTATGAATTT
Found at i:814205 original size:44 final size:44
Alignment explanation
Indices: 814138--814225 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
814128 TTTTATCAAC
* *
814138 ATTTAAATTCCATTCTTTGTTGGTTATCATTTTGCATTCATTTT
1 ATTTAAATTCCATTCTTTATTGGTTATCATTTTACATTCATTTT
814182 ATTTAAATTCCATTCTTTATTGGTTATCATTTTACATTCATTTT
1 ATTTAAATTCCATTCTTTATTGGTTATCATTTTACATTCATTTT
814226 TGCTATGCAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.23, C:0.14, G:0.07, T:0.57
Consensus pattern (44 bp):
ATTTAAATTCCATTCTTTATTGGTTATCATTTTACATTCATTTT
Found at i:816871 original size:141 final size:140
Alignment explanation
Indices: 816693--817024 Score: 432
Period size: 141 Copynumber: 2.3 Consensus size: 140
816683 TTTATTTTTG
* * * * *
816693 AAAATCTCATTTCGTATCTTAATGAAAAATCGAAAAGATATAAAAAGTTTTGAAGATTTTTATAC
1 AAAATC-CATTTCGTACCTTAATGGAGAACCGAAAAGATA-AAAAAGTTTTGAAGATTTCTATAC
* ** * * * *
816758 TCCTACGGAAAACTATAGAAATATTATAAATCTTGAAAAATTAAGATAATAATTTTTATTTAATT
64 CCCTACAAAAAACCATAGAAATACTAGAAATCTTAAAAAATTAAGATAATAATTTTTATTTAATT
*
816823 TTTAATTTTCAA
129 TTTAATTTCCAA
* * *
816835 AAAATTCATTTCGTACTTTAATGGAGAACC-ACAAAGATAAGAAAATTTTTGAAGATTTCTATAC
1 AAAATCCATTTCGTACCTTAATGGAGAACCGA-AAAGATAA-AAAAGTTTTGAAGATTTCTATAC
* *
816899 CCCTACAAAAAACCATAGGAATACTAGAAATCTTAAAAAATTATGATAATAATTTTTATTTAATT
64 CCCTACAAAAAACCATAGAAATACTAGAAATCTTAAAAAATTAAGATAATAATTTTTATTTAATT
816964 TTTAATTTCCAA
129 TTTAATTTCCAA
* *
816976 AAAATCCATTTTGTACCTTAATGGAGAACCGAAAAGATACGAAAAGTTT
1 AAAATCCATTTCGTACCTTAATGGAGAACCGAAAAGATA-AAAAAGTTT
817025 AAAGAAGCCT
Statistics
Matches: 163, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
140 2 0.01
141 155 0.95
142 6 0.04
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.35
Consensus pattern (140 bp):
AAAATCCATTTCGTACCTTAATGGAGAACCGAAAAGATAAAAAAGTTTTGAAGATTTCTATACCC
CTACAAAAAACCATAGAAATACTAGAAATCTTAAAAAATTAAGATAATAATTTTTATTTAATTTT
TAATTTCCAA
Found at i:817050 original size:141 final size:140
Alignment explanation
Indices: 816766--817077 Score: 396
Period size: 141 Copynumber: 2.2 Consensus size: 140
816756 ACTCCTACGG
* * * *
816766 AAAACTATAGAAATATTATAAATCTTGAAAAATTAAGATAATAATTTTTATTTAATTTTTAATTT
1 AAAACCATAGGAATATTAAAAATCTTAAAAAATTAAGATAATAATTTTTATTTAATTTTTAATTT
* * * * * ***
816831 TCAAAAAATTCATTTCGTACTTTAATGGAGAACCACAAAGATAAGAAAATTTTTGAAGATTTCTA
66 CCAAAAAATCCATTTCGTACCTTAATGGAGAACCACAAAGATAAGAAAATGTTTAAAGAAGCCTA
816896 TACCCCTACAA
131 TACCCCTAC-A
* * *
816907 AAAACCATAGGAATACTAGAAATCTTAAAAAATTATGATAATAATTTTTATTTAATTTTTAATTT
1 AAAACCATAGGAATATTAAAAATCTTAAAAAATTAAGATAATAATTTTTATTTAATTTTTAATTT
* *
816972 CCAAAAAATCCATTTTGTACCTTAATGGAGAACCGA-AAAGATACGAAAA-GTTTAAAGAAGCCT
66 CCAAAAAATCCATTTCGTACCTTAATGGAGAACC-ACAAAGATAAGAAAATGTTTAAAGAAGCCT
**
817035 ATACCTTTACGA
130 ATACCCCTAC-A
*
817047 AAAACCATAAGAATATTAAAAATC-TAAAAAA
1 AAAACCATAGGAATATTAAAAATCTTAAAAAA
817078 GAGAAAAAGT
Statistics
Matches: 148, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
139 7 0.05
140 39 0.26
141 101 0.68
142 1 0.01
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.33
Consensus pattern (140 bp):
AAAACCATAGGAATATTAAAAATCTTAAAAAATTAAGATAATAATTTTTATTTAATTTTTAATTT
CCAAAAAATCCATTTCGTACCTTAATGGAGAACCACAAAGATAAGAAAATGTTTAAAGAAGCCTA
TACCCCTACA
Found at i:817814 original size:22 final size:22
Alignment explanation
Indices: 817787--817837 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
817777 GAGTTTAGCT
*
817787 TTTTTTTTTTCAATTTTCTCAC
1 TTTTTTTCTTCAATTTTCTCAC
** *
817809 TTTTTTTCTTCTTTTTTCTCTC
1 TTTTTTTCTTCAATTTTCTCAC
817831 TTTTTTT
1 TTTTTTT
817838 ACTTGCTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTTTTTCTTCAATTTTCTCAC
Found at i:817815 original size:12 final size:12
Alignment explanation
Indices: 817800--817837 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
817790 TTTTTTTCAA
*
817800 TTTTCTCACTTT
1 TTTTCTCTCTTT
817812 TTTTCT-TC-TT
1 TTTTCTCTCTTT
817822 TTTTCTCTCTTT
1 TTTTCTCTCTTT
817834 TTTT
1 TTTT
817838 ACTTGCTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
10 8 0.35
11 3 0.13
12 12 0.52
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTCTCTCTTT
Found at i:818611 original size:166 final size:165
Alignment explanation
Indices: 818382--818819 Score: 413
Period size: 165 Copynumber: 2.6 Consensus size: 165
818372 GACAATGTTA
* *
818382 GATGAATTTTAAAAATTTTAAATCAAGAAAAAT-CTCCCTGAAAATATTTATAGAATAGAAAACT
1 GATGAATTTTAAAAATTTTAAATCAAGAAAAATCCT-CCTGAAAACATTTACAGAATAGAAAACT
* * * * * * *
818446 C-GATTTTTTAAAAATAAGAAAATTTTAAAGAACAAATGAAAAACTT-GTGAAAATGAATG-AAT
65 CTG-TATTTTAAAAATAAGAAAATTTCAAA-AAAAAATGAAAAA-TTCATG-AAATAAAAGAAAA
* *
818508 TTTTTAAAACTGATTTACT-ATGAATGAAATAATAATATTT
126 TTTTCAAAACTAATTTACTGATG-ATGAAATAATAATATTT
* * * * *
818548 GATGTATTTTAAAAATTATAAATCAAGAAAAATCCTCCTGAAACCATTTACGGAGTAGAAAACTC
1 GATGAATTTTAAAAATTTTAAATCAAGAAAAATCCTCCTGAAAACATTTACAGAATAGAAAACTC
** **
818613 TGTATTTTGGAAATTGGAAAATTTCAAAAAAAAATGAAAAATTCATGAAATAAAAGAAAATTTTC
66 TGTATTTTAAAAATAAGAAAATTTCAAAAAAAAATGAAAAATTCATGAAATAAAAGAAAATTTTC
* * *
818678 AAAACTAATTTAGTGGTGATTAAATAATAATATTT
131 AAAACTAATTTACTGATGATGAAATAATAATATTT
* * * * ** * *
818713 GATGAATTTCAAAAATTTTAAACCGATAAAAATCCTCCCAAAAAAATTTATAGAGA-A-ATAAAC
1 GATGAATTTTAAAAATTTTAAATCAAGAAAAATCCTCCTGAAAACATTTACAGA-ATAGA-AAAC
* ** * * *
818776 CCTGTATTTCGAAAATAAGAAGAATTCCAAAAGAAAATAAAAAA
64 TCTGTATTTTAAAAATAAGAA-AATTTCAAAAAAAAATGAAAAA
818820 CCCATGGAAC
Statistics
Matches: 220, Mismatches: 44, Indels: 16
0.79 0.16 0.06
Matches are distributed among these distances:
164 10 0.05
165 111 0.50
166 96 0.44
167 3 0.01
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.30
Consensus pattern (165 bp):
GATGAATTTTAAAAATTTTAAATCAAGAAAAATCCTCCTGAAAACATTTACAGAATAGAAAACTC
TGTATTTTAAAAATAAGAAAATTTCAAAAAAAAATGAAAAATTCATGAAATAAAAGAAAATTTTC
AAAACTAATTTACTGATGATGAAATAATAATATTT
Found at i:818655 original size:20 final size:19
Alignment explanation
Indices: 818630--818681 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 19
818620 TGGAAATTGG
818630 AAAATTTCAAAAAAAAATGA
1 AAAATTTCAAAAAAAAA-GA
*
818650 AAAA-TTCATGAAATAAAAGA
1 AAAATTTCA--AAAAAAAAGA
*
818670 AAATTTTCAAAA
1 AAAATTTCAAAA
818682 CTAATTTAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
19 7 0.26
20 9 0.33
21 11 0.41
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.23
Consensus pattern (19 bp):
AAAATTTCAAAAAAAAAGA
Found at i:819693 original size:2 final size:2
Alignment explanation
Indices: 819686--819713 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
819676 AAACATACAC
819686 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
819714 GAAAATAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:819950 original size:30 final size:30
Alignment explanation
Indices: 819914--820009 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
819904 AAAAATCAAC
*
819914 TGAATACAACCAAATGAAGAAGGACTTGAT
1 TGAATACAATCAAATGAAGAAGGACTTGAT
** * *
819944 TGAATACAATCAAGCGAGGTAA-GATTTGAT
1 TGAATACAATCAAATGAAG-AAGGACTTGAT
* *
819974 CGAATACAATCAAATGAA-AGGAGACTTGAT
1 TGAATACAATCAAATGAAGAAG-GACTTGAT
820004 TGAATA
1 TGAATA
820010 TAGTCAAACG
Statistics
Matches: 51, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
28 1 0.02
30 48 0.94
31 2 0.04
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.23
Consensus pattern (30 bp):
TGAATACAATCAAATGAAGAAGGACTTGAT
Found at i:820031 original size:60 final size:58
Alignment explanation
Indices: 819915--820125 Score: 165
Period size: 60 Copynumber: 3.5 Consensus size: 58
819905 AAAATCAACT
* * * *
819915 GAATACAACCAAATGAAGAAGGACTTGATTGAATACAATCAAGCGAGGT-AAGATTTGATC
1 GAATACAACCAAATGAAGGA-GACTTGATTGAATATAGTCAAGCGA-ATAAAGATTTGA-C
* * *
819975 GAATACAATCAAATGAAAGGAGACTTGATTGAATATAGTCAAACGAATAAAAATTTGAGC
1 GAATACAACCAAATG-AAGGAGACTTGATTGAATATAGTCAAGCGAATAAAGATTTGA-C
* * ** ** * *
820035 AAATATAGTCAAATG-AGGCAGACTTGACCGAGTATAGTCAAGCGAACAAAGATTTGAC
1 GAATACAACCAAATGAAGG-AGACTTGATTGAATATAGTCAAGCGAATAAAGATTTGAC
* * * *
820093 TAAGTACAGCCAAATAAAGACAGACTTGATTGA
1 GAA-TACAACCAAATGAAG-GAGACTTGATTGA
820126 GTACAATCAA
Statistics
Matches: 121, Mismatches: 24, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
58 6 0.05
59 42 0.35
60 69 0.57
61 4 0.03
ACGTcount: A:0.45, C:0.13, G:0.20, T:0.22
Consensus pattern (58 bp):
GAATACAACCAAATGAAGGAGACTTGATTGAATATAGTCAAGCGAATAAAGATTTGAC
Found at i:820107 original size:59 final size:60
Alignment explanation
Indices: 820008--820121 Score: 133
Period size: 59 Copynumber: 1.9 Consensus size: 60
819998 CTTGATTGAA
* * * * *
820008 TATAGTCAAACGAATAAAAATTTGAGCAAATATAGTCAAAT-GAGGCAGACTTGACCGAG
1 TATAGTCAAACGAACAAAAATTTGAGCAAATACAGCCAAATAAAGACAGACTTGACCGAG
* * *
820067 TATAGTCAAGCGAACAAAGATTTGA-CTAAGTACAGCCAAATAAAGACAGACTTGA
1 TATAGTCAAACGAACAAAAATTTGAGC-AAATACAGCCAAATAAAGACAGACTTGA
820122 TTGAGTACAA
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
58 1 0.02
59 33 0.73
60 11 0.24
ACGTcount: A:0.45, C:0.15, G:0.19, T:0.21
Consensus pattern (60 bp):
TATAGTCAAACGAACAAAAATTTGAGCAAATACAGCCAAATAAAGACAGACTTGACCGAG
Found at i:820214 original size:45 final size:44
Alignment explanation
Indices: 820160--820327 Score: 210
Period size: 45 Copynumber: 3.8 Consensus size: 44
820150 AATTTGACCA
* * * *
820160 AGGCAACACCGATACAGTCAAATGAGAGTGAAATGAATCTGACT
1 AGGCAACACCGATACAGTCAAATAAGAGTGAAAAGAGTTTGACT
* *
820204 AGGTCAACACCGATACAGTCAAATAAGGGTGAAAAGAGTTTGATCA
1 AGG-CAACACCGATACAGTCAAATAAGAGTGAAAAGAGTTTGA-CT
* ** *
820250 AGGCAACACCGATATAGTCAAACGAGGGTGAAAAGAGTTTGACT
1 AGGCAACACCGATACAGTCAAATAAGAGTGAAAAGAGTTTGACT
*
820294 AGGGCAACACCGATGCAGTCAAATAAGAGTGAAA
1 A-GGCAACACCGATACAGTCAAATAAGAGTGAAA
820328 CAAGAAACGA
Statistics
Matches: 106, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
44 5 0.05
45 97 0.92
46 4 0.04
ACGTcount: A:0.41, C:0.17, G:0.25, T:0.17
Consensus pattern (44 bp):
AGGCAACACCGATACAGTCAAATAAGAGTGAAAAGAGTTTGACT
Found at i:820296 original size:90 final size:90
Alignment explanation
Indices: 820143--820327 Score: 262
Period size: 90 Copynumber: 2.1 Consensus size: 90
820133 CAAGCAAAAC
* * *
820143 TGAAAAAAATTTGACCAAGGCAACACCGATACAGTCAAATGAGAGTGAAATGAATCTGACTAGGT
1 TGAAAAAAATTTGACCAAGGCAACACCGATACAGTCAAACGAGAGTGAAAAGAATCTGACTAGGG
*
820208 CAACACCGATACAGTCAAATAAGGG
66 CAACACCGATACAGTCAAATAAGAG
* * * * * * *
820233 TGAAAAGAGTTTGATCAAGGCAACACCGATATAGTCAAACGAGGGTGAAAAGAGTTTGACTAGGG
1 TGAAAAAAATTTGACCAAGGCAACACCGATACAGTCAAACGAGAGTGAAAAGAATCTGACTAGGG
*
820298 CAACACCGATGCAGTCAAATAAGAG
66 CAACACCGATACAGTCAAATAAGAG
820323 TGAAA
1 TGAAA
820328 CAAGAAACGA
Statistics
Matches: 83, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
90 83 1.00
ACGTcount: A:0.42, C:0.16, G:0.24, T:0.18
Consensus pattern (90 bp):
TGAAAAAAATTTGACCAAGGCAACACCGATACAGTCAAACGAGAGTGAAAAGAATCTGACTAGGG
CAACACCGATACAGTCAAATAAGAG
Found at i:820389 original size:63 final size:63
Alignment explanation
Indices: 820269--820390 Score: 174
Period size: 63 Copynumber: 1.9 Consensus size: 63
820259 CGATATAGTC
* * *
820269 AAACGAGGGTGAAAAGAGTTTGACTAGGGCAACACCGATGCAGTCAAATAAGAGTGAAACAAG
1 AAACGAAGGTGAAAAGAGTTTGACCAGGGCAACACCGATACAGTCAAATAAGAGTGAAACAAG
* * *
820332 AAACGAAGGTGAAAAGAGTTTGACCAGGGCAACATCGATATAGTTAAATGAAG-GTGAAA
1 AAACGAAGGTGAAAAGAGTTTGACCAGGGCAACACCGATACAGTCAAAT-AAGAGTGAAA
820391 AGAGTTTGAC
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
63 49 0.94
64 3 0.06
ACGTcount: A:0.43, C:0.12, G:0.28, T:0.16
Consensus pattern (63 bp):
AAACGAAGGTGAAAAGAGTTTGACCAGGGCAACACCGATACAGTCAAATAAGAGTGAAACAAG
Found at i:820400 original size:45 final size:44
Alignment explanation
Indices: 820336--820670 Score: 317
Period size: 45 Copynumber: 7.5 Consensus size: 44
820326 AACAAGAAAC
* *
820336 GAAGGTGAAAAGAGTTTGACCAGGGCAACATCGATATAGTTAAAT
1 GAAGGTGAAAAGAGTTTGACCAGGGCAACA-CGATACAGTCAAAT
* * *
820381 GAAGGTGAAAAGAGTTTGACCAGGGTAACACTGATATAGTCAAAC
1 GAAGGTGAAAAGAGTTTGACCAGGGCAACAC-GATACAGTCAAAT
* * *
820426 G-AGAGTGAAAAGAGTTTGACCAGGGTAACACTA-ATCAGTCAAAC
1 GAAG-GTGAAAAGAGTTTGACCAGGGCAACACGATA-CAGTCAAAT
*
820470 GAAGGTGAAAAGAGTTTGACTAGGGCAACATCGATACAGTCAAA-
1 GAAGGTGAAAAGAGTTTGACCAGGGCAACA-CGATACAGTCAAAT
* * *
820514 CAATGGTGAAAAGAGTTTGACCA-GGCAACACTAATACAGTTAAAT
1 GAA-GGTGAAAAGAGTTTGACCAGGGCAACAC-GATACAGTCAAAT
** *
820559 G-AGAGT-AAAAGGAGTTTGATTAGGGCAATACCGATACAGTCAAAT
1 GAAG-GTGAAAA-GAGTTTGACCAGGGCAACA-CGATACAGTCAAAT
* * * * *
820604 GAGGGTGAAAAGAGTTTGACCAGGGTAACACCGAAACAATCAAAC
1 GAAGGTGAAAAGAGTTTGACCAGGGCAACA-CGATACAGTCAAAT
820649 G-AGAGTGAAATA-AGTTTGACCA
1 GAAG-GTGAAA-AGAGTTTGACCA
820671 AGGTAGAACC
Statistics
Matches: 246, Mismatches: 27, Indels: 34
0.80 0.09 0.11
Matches are distributed among these distances:
43 7 0.03
44 69 0.28
45 162 0.66
46 8 0.03
ACGTcount: A:0.41, C:0.14, G:0.26, T:0.20
Consensus pattern (44 bp):
GAAGGTGAAAAGAGTTTGACCAGGGCAACACGATACAGTCAAAT
Found at i:820422 original size:108 final size:108
Alignment explanation
Indices: 820231--820435 Score: 293
Period size: 108 Copynumber: 1.9 Consensus size: 108
820221 GTCAAATAAG
* * *
820231 GGTGAAAAGAGTTTGATCAAGGCAACACCGATATAGTCAAACGAGGGTGAAAAGAGTTTGACTAG
1 GGTGAAAAGAGTTTGACCAAGGCAACACCGATATAGTCAAACGAAGGTGAAAAGAGTTTGACCAG
* *
820296 GGCAACACCGATGCAGTCAAATAAGAGTGAAACAAGAAACGAA
66 GGCAACACCGATACAGTCAAACAAGAGTGAAACAAGAAACGAA
* * * *
820339 GGTGAAAAGAGTTTGACCAGGGCAACATCGATATAGTTAAATGAAGGTGAAAAGAGTTTGACCAG
1 GGTGAAAAGAGTTTGACCAAGGCAACACCGATATAGTCAAACGAAGGTGAAAAGAGTTTGACCAG
* * * *
820404 GGTAACACTGATATAGTCAAACGAGAGTGAAA
66 GGCAACACCGATACAGTCAAACAAGAGTGAAA
820436 AGAGTTTGAC
Statistics
Matches: 84, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
108 84 1.00
ACGTcount: A:0.41, C:0.13, G:0.27, T:0.18
Consensus pattern (108 bp):
GGTGAAAAGAGTTTGACCAAGGCAACACCGATATAGTCAAACGAAGGTGAAAAGAGTTTGACCAG
GGCAACACCGATACAGTCAAACAAGAGTGAAACAAGAAACGAA
Found at i:820513 original size:89 final size:89
Alignment explanation
Indices: 820332--820668 Score: 334
Period size: 89 Copynumber: 3.8 Consensus size: 89
820322 GTGAAACAAG
* * *
820332 AAACGA-AGGTGAAAAGAGTTTGACCAGGGCAACATCGATAT-AGTTAAATGA-AGGTGAAAAGA
1 AAACGAGA-GTGAAAAGAGTTTGACCAGGGCAACACCGA-ATCAGTCAAACGAGA-GTGAAAAGA
* * *
820394 GTTTGACCAGGGTAACACTGATATAGTC
63 GTTTGACTAGGGCAACAC-GATACAGTC
* *
820422 AAACGAGAGTGAAAAGAGTTTGACCAGGGTAACA-CTAATCAGTCAAACGA-AGGTGAAAAGAGT
1 AAACGAGAGTGAAAAGAGTTTGACCAGGGCAACACCGAATCAGTCAAACGAGA-GTGAAAAGAGT
820485 TTGACTAGGGCAACATCGATACAGTC
65 TTGACTAGGGCAACA-CGATACAGTC
* * * *
820511 AAACAATG-GTGAAAAGAGTTTGACCA-GGCAACA-CTAATACAGTTAAATGAGAGT-AAAAGGA
1 AAACGA-GAGTGAAAAGAGTTTGACCAGGGCAACACCGAAT-CAGTCAAACGAGAGTGAAAA-GA
* *
820572 GTTTGATTAGGGCAATACCGATACAGTC
63 GTTTGACTAGGGCAACA-CGATACAGTC
* * * * *
820600 AAATGAGGGTGAAAAGAGTTTGACCAGGGTAACACCGAAACAATCAAACGAGAGTGAAATA-AGT
1 AAACGAGAGTGAAAAGAGTTTGACCAGGGCAACACCGAATCAGTCAAACGAGAGTGAAA-AGAGT
820664 TTGAC
65 TTGAC
820669 CAAGGTAGAA
Statistics
Matches: 212, Mismatches: 23, Indels: 24
0.82 0.09 0.09
Matches are distributed among these distances:
88 18 0.08
89 127 0.60
90 59 0.28
91 7 0.03
92 1 0.00
ACGTcount: A:0.41, C:0.14, G:0.26, T:0.20
Consensus pattern (89 bp):
AAACGAGAGTGAAAAGAGTTTGACCAGGGCAACACCGAATCAGTCAAACGAGAGTGAAAAGAGTT
TGACTAGGGCAACACGATACAGTC
Found at i:820599 original size:134 final size:133
Alignment explanation
Indices: 820332--820670 Score: 405
Period size: 134 Copynumber: 2.5 Consensus size: 133
820322 GTGAAACAAG
* * *
820332 AAACGAAGGTGAAAAGAGTTTGACCAGGGCAACATCGATATAGTTAAATGAAGGTGAAAAGAGTT
1 AAACGAAGGTGAAAAGAGTTTGACCAGGGCAACATCGATACAGTCAAA-CAAGGTGAAAAGAGTT
* * * * *
820397 TGACCAGGGTAACACTGATATAGTCAAACGAGAGTGAAAAGAGTTTGACCAGGGTAACACTAATC
65 TGACCAGGGCAACACTAATACAGTCAAACGAGAGTGAAAAGAGTTTGACCAGGGCAACACCAATC
820462 AGTC
130 AGTC
*
820466 AAACGAAGGTGAAAAGAGTTTGACTAGGGCAACATCGATACAGTCAAACAATGGTGAAAAGAGTT
1 AAACGAAGGTGAAAAGAGTTTGACCAGGGCAACATCGATACAGTCAAACAA-GGTGAAAAGAGTT
* * ** * *
820531 TGACCA-GGCAACACTAATACAGTTAAATGAGAGT-AAAAGGAGTTTGATTAGGGCAATACCGAT
65 TGACCAGGGCAACACTAATACAGTCAAACGAGAGTGAAAA-GAGTTTGACCAGGGCAACACCAAT
820594 ACAGTC
129 -CAGTC
* * * * * * *
820600 AAATGAGGGTGAAAAGAGTTTGACCAGGGTAACACCGAAACAATCAAACGAGAGTGAAATA-AGT
1 AAACGAAGGTGAAAAGAGTTTGACCAGGGCAACATCGATACAGTCAAACAAG-GTGAAA-AGAGT
820664 TTGACCA
64 TTGACCA
820671 AGGTAGAACC
Statistics
Matches: 177, Mismatches: 23, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
132 4 0.02
133 44 0.25
134 128 0.72
135 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.25, T:0.19
Consensus pattern (133 bp):
AAACGAAGGTGAAAAGAGTTTGACCAGGGCAACATCGATACAGTCAAACAAGGTGAAAAGAGTTT
GACCAGGGCAACACTAATACAGTCAAACGAGAGTGAAAAGAGTTTGACCAGGGCAACACCAATCA
GTC
Found at i:820709 original size:134 final size:134
Alignment explanation
Indices: 820332--820712 Score: 355
Period size: 134 Copynumber: 2.8 Consensus size: 134
820322 GTGAAACAAG
* * * * * *
820332 AAACGAAGGTGAAAAGAGTTTGACCAGGGCAACATCGATATAGTTAAATGAA-GGTGAAAAGAGT
1 AAACGAAGGTGAAAAGAGTTTGACCAGGGCAACACCGAAACAATCAAA-CAATGGTGAAAAGAGT
* * * * * ** * * **
820396 TTGACCAGGGTAACACTGATATAGTCAAACGAGAGTGAAAAG-AGTTTGACCAGGGTAACACTAA
65 TTGACCA-GGCAACACTAATACAGTCAAATGACAGT-AAAAGCAGTTTGATTAGGGCAATACCGA
820460 T-CAGTC
128 TACAGTC
* * * *
820466 AAACGAAGGTGAAAAGAGTTTGACTAGGGCAACATCGATACAGTCAAACAATGGTGAAAAGAGTT
1 AAACGAAGGTGAAAAGAGTTTGACCAGGGCAACACCGAAACAATCAAACAATGGTGAAAAGAGTT
* * *
820531 TGACCAGGCAACACTAATACAGTTAAATGAGAGTAAAAGGAGTTTGATTAGGGCAATACCGATAC
66 TGACCAGGCAACACTAATACAGTCAAATGACAGTAAAAGCAGTTTGATTAGGGCAATACCGATAC
820596 AGTC
131 AGTC
* * * *
820600 AAATGAGGGTGAAAAGAGTTTGACCAGGGTAACACCGAAACAATCAAACGA-GAGTGAAATA-AG
1 AAACGAAGGTGAAAAGAGTTTGACCAGGGCAACACCGAAACAATCAAACAATG-GTGAAA-AGAG
* * *
820663 TTTGACCAAGGTAGA-AC-CAT-CACGTCAAATGACAGTGAAAGCAGTTTGAT
64 TTTGACC-AGGCA-ACACTAATACA-GTCAAATGACAGTAAAAGCAGTTTGAT
820713 ATCTAGGTTT
Statistics
Matches: 210, Mismatches: 29, Indels: 16
0.82 0.11 0.06
Matches are distributed among these distances:
132 5 0.02
133 45 0.21
134 152 0.72
135 7 0.03
136 1 0.00
ACGTcount: A:0.41, C:0.14, G:0.25, T:0.20
Consensus pattern (134 bp):
AAACGAAGGTGAAAAGAGTTTGACCAGGGCAACACCGAAACAATCAAACAATGGTGAAAAGAGTT
TGACCAGGCAACACTAATACAGTCAAATGACAGTAAAAGCAGTTTGATTAGGGCAATACCGATAC
AGTC
Found at i:821015 original size:21 final size:22
Alignment explanation
Indices: 820991--821034 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
820981 CATGATTTGA
820991 TTCATTC-TTCATATTTCATTT
1 TTCATTCATTCATATTTCATTT
* *
821012 TTCATTCATTCATTTTTCCTTT
1 TTCATTCATTCATATTTCATTT
821034 T
1 T
821035 ATAGTATGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.16, C:0.20, G:0.00, T:0.64
Consensus pattern (22 bp):
TTCATTCATTCATATTTCATTT
Found at i:829807 original size:22 final size:22
Alignment explanation
Indices: 829768--829809 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
829758 AAATATGAAG
* **
829768 TAGTAAAATAAATTAATAAATC
1 TAGTAAAAAAAAGCAATAAATC
829790 TAGTAAAAAAAAGCAATAAA
1 TAGTAAAAAAAAGCAATAAA
829810 AGAAAAGGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.24
Consensus pattern (22 bp):
TAGTAAAAAAAAGCAATAAATC
Found at i:832346 original size:140 final size:140
Alignment explanation
Indices: 832202--832478 Score: 455
Period size: 140 Copynumber: 2.0 Consensus size: 140
832192 AAAAATCTTG
832202 AAAAATTAAGATAATAATTTTTATTTAATTTTTAATTTTCAAAAAATTTATTTCATACCTTAACA
1 AAAAATTAAGATAATAATTTTTATTTAATTTTTAATTTTCAAAAAATTTATTTCATACCTTAACA
* * ** * *
832267 GAGAATCAAAAAGATACGAAATTTTTTAAAGATTTCTATACCTCTACGAAAAACCATAAGAATAC
66 GAGAACCAAAAAGATAAGAAAAGTTTTAAAGATTCCTATACCACTACGAAAAACCATAAGAATAC
832332 TAGAAATCCT
131 TAGAAATCCT
* * *
832342 AAAAATTATGATAATAATTTTTATTTAATTTTTAATTTTCAAAAAATTTATTTCGTACCTTAATA
1 AAAAATTAAGATAATAATTTTTATTTAATTTTTAATTTTCAAAAAATTTATTTCATACCTTAACA
* *
832407 GAGAACCAAAAAGATAAGAAAAGTTTTAAAGATTCCTATACCACTACGAAAAACCATAGGAATAT
66 GAGAACCAAAAAGATAAGAAAAGTTTTAAAGATTCCTATACCACTACGAAAAACCATAAGAATAC
832472 TAGAAAT
131 TAGAAAT
832479 TAAAAAAAAA
Statistics
Matches: 126, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
140 126 1.00
ACGTcount: A:0.46, C:0.11, G:0.08, T:0.35
Consensus pattern (140 bp):
AAAAATTAAGATAATAATTTTTATTTAATTTTTAATTTTCAAAAAATTTATTTCATACCTTAACA
GAGAACCAAAAAGATAAGAAAAGTTTTAAAGATTCCTATACCACTACGAAAAACCATAAGAATAC
TAGAAATCCT
Found at i:833995 original size:167 final size:165
Alignment explanation
Indices: 833742--834179 Score: 473
Period size: 167 Copynumber: 2.6 Consensus size: 165
833732 CAGTCTAATG
* * * *
833742 ATAATGTTAGATGAATTTTGAAAATTTTAAAT-AA-AAAAATCTCCCCAAAAACATTTATAGAAT
1 ATAATATTTGATGAA-TTTAAAAATTTTAAATCAATAAAAATC-CCCCAAAAACATTTATAGAGT
* * *
833805 AGAAAACTCTGTTTTTTGAAAATAGAGGAATTTCAAAGAAAAAAATGAAAAACTT-ATAAAACT-
64 AAAAAACTCTGTATTTCGAAAATAGAGGAATTTCAAAGAAAAAAATGAAAAA-TTCATAAAA-TA
* * * *
833868 GAATGAATTTTTCAAAACTAATTTACT-ATGAATTAAATG
127 AAAAGAATTTTTCAAAACTAATTTAATGATG-ATTAAATA
* * *
833907 ATGATATTTGATGAATTATAAAAATTATAAATCAATAAAAATGCCCCCAAAAACATTTACAGAGT
1 ATAATATTTGATGAATT-TAAAAATTTTAAATCAATAAAAAT-CCCCCAAAAACATTTATAGAGT
* * *
833972 AAAAAACTCTGTATTTCGAAAATA-AGAAGATTTC-AAGAAAAAAAATGAGAAATTCATGAAATA
64 AAAAAACTCTGTATTTCGAAAATAGAGGA-ATTTCAAAG-AAAAAAATGAAAAATTCATAAAATA
* *
834035 AAAAGAATTTTTCAAAATTAATTTAATGGTGATTAAATA
127 AAAAGAATTTTTCAAAACTAATTTAATGATGATTAAATA
* * *
834074 ATAATATTTGATGAATTTCAAAAATTTTAAATCGATGAAAATCCTCCCAAAAA-ATTTGTAGAG-
1 ATAATATTTGATGAATTT-AAAAATTTTAAATCAATAAAAATCC-CCCAAAAACATTTATAGAGT
* *
834137 AAGAAAACTCCGTATTTCGAAAATAAGAGGAATTTTAAA-AAAA
64 AA-AAAACTCTGTATTTCGAAAAT-AGAGGAATTTCAAAGAAAA
834180 TATAAAAAAC
Statistics
Matches: 230, Mismatches: 28, Indels: 29
0.80 0.10 0.10
Matches are distributed among these distances:
164 2 0.01
165 26 0.11
166 46 0.20
167 148 0.64
168 8 0.03
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.30
Consensus pattern (165 bp):
ATAATATTTGATGAATTTAAAAATTTTAAATCAATAAAAATCCCCCAAAAACATTTATAGAGTAA
AAAACTCTGTATTTCGAAAATAGAGGAATTTCAAAGAAAAAAATGAAAAATTCATAAAATAAAAA
GAATTTTTCAAAACTAATTTAATGATGATTAAATA
Found at i:834017 original size:23 final size:22
Alignment explanation
Indices: 833990--834038 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
833980 CTGTATTTCG
833990 AAAATAAGAAGATTTCAAGAAA-A
1 AAAATAAGAA-A-TTCAAGAAATA
* *
834013 AAAATGAGAAATTCATGAAATA
1 AAAATAAGAAATTCAAGAAATA
834035 AAAA
1 AAAA
834039 GAATTTTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 8 0.35
22 6 0.26
23 9 0.39
ACGTcount: A:0.65, C:0.04, G:0.12, T:0.18
Consensus pattern (22 bp):
AAAATAAGAAATTCAAGAAATA
Found at i:834911 original size:13 final size:13
Alignment explanation
Indices: 834893--834918 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
834883 TACAGCAAGT
834893 ATGTATCGATACA
1 ATGTATCGATACA
834906 ATGTATCGATACA
1 ATGTATCGATACA
834919 TTGGCTTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:837150 original size:21 final size:21
Alignment explanation
Indices: 837117--837161 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
837107 TTGCAAGTTG
*
837117 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
837139 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
837159 AAA
1 AAA
837162 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:838985 original size:15 final size:15
Alignment explanation
Indices: 838965--838995 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
838955 TAAAAATGTC
*
838965 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
838980 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
838995 C
1 C
838996 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:841081 original size:20 final size:20
Alignment explanation
Indices: 841002--841081 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
840992 AATGTCCAAA
*
841002 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
841022 GTGTATCGATACATCTAGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
841047 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
841067 TTGTATCGATACATT
1 ATGTATCGATACATT
841082 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:841085 original size:13 final size:13
Alignment explanation
Indices: 841067--841105 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
841057 ACATTTTTCT
841067 TTGTATCGATACA
1 TTGTATCGATACA
841080 TTGTATCGATACA
1 TTGTATCGATACA
*
841093 CTGTATCGATACA
1 TTGTATCGATACA
841106 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:841250 original size:21 final size:21
Alignment explanation
Indices: 841226--841272 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
841216 AAATCTTTTG
841226 CAAAAT-ACTT-GTTTTTCACTT
1 CAAAATAACTTCGTTTTTCA--T
841247 C-AAATAACTTCGTTTTTCAT
1 CAAAATAACTTCGTTTTTCAT
841267 CAAAAT
1 CAAAAT
841273 CAGCATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (21 bp):
CAAAATAACTTCGTTTTTCAT
Found at i:841269 original size:20 final size:19
Alignment explanation
Indices: 841228--841270 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
841218 ATCTTTTGCA
841228 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
841248 AAATAACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
841268 AAA
1 AAA
841271 ATCAGCATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:847260 original size:33 final size:33
Alignment explanation
Indices: 847223--847289 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
847213 TTCAATGATT
847223 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
847256 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
847289 T
1 T
847290 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:847261 original size:13 final size:13
Alignment explanation
Indices: 847243--847267 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
847233 CATAAAATGT
847243 TGTATCGATACAA
1 TGTATCGATACAA
847256 TGTATCGATACA
1 TGTATCGATACA
847268 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:847350 original size:13 final size:13
Alignment explanation
Indices: 847332--847356 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
847322 GTTACTCACA
847332 TGTATCGATACAT
1 TGTATCGATACAT
847345 TGTATCGATACA
1 TGTATCGATACA
847357 CTGATTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:847407 original size:52 final size:51
Alignment explanation
Indices: 847345--847485 Score: 210
Period size: 52 Copynumber: 2.7 Consensus size: 51
847335 ATCGATACAT
**
847345 TGTATCGATACACTGATTTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACT-ATTAATGTATCGATACATGCAGGCAAATTTGCCCAGA
* * *
847397 TGTATCGATACAGTATAAAATGTATCGATACATGCAGGCAAATTTTCCCAGA
1 TGTATCGATACACTAT-TAATGTATCGATACATGCAGGCAAATTTGCCCAGA
847449 TGTATCGATACACTATTAAATGTATCGATACATGCAG
1 TGTATCGATACACTATT-AATGTATCGATACATGCAG
847486 TAACTTTTCA
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.03
52 78 0.98
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (51 bp):
TGTATCGATACACTATTAATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:854151 original size:1 final size:1
Alignment explanation
Indices: 854145--854176 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
854135 ATCCTCTCAC
854145 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
854177 TCCTTTGCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Done.